From: Uwe Köcher Date: Wed, 21 May 2014 11:09:40 +0000 (+0200) Subject: Initial CANDI release on GitHub (v0.2) X-Git-Tag: 0.2 X-Git-Url: https://gitweb.dealii.org/cgi-bin/gitweb.cgi?a=commitdiff_plain;h=501cf104666c6b115d9d74d1db2e38be60534c6f;p=candi.git Initial CANDI release on GitHub (v0.2) --- diff --git a/AUTHORS b/AUTHORS new file mode 100644 index 0000000..9736b68 --- /dev/null +++ b/AUTHORS @@ -0,0 +1,44 @@ +NVRI.software/candi is a majorily tweaked DORSAL and maintained by: + Uwe Koecher + +The origin is Dorsal (licensed under the LGPL): + https://bitbucket.org/fenics-project/dorsal/src + master c667be2 2013-11-27 + +Please find the list of the authors of Dorsal below: + +Dorsal is written and maintained by: + + Harish Narayanan + http://home.simula.no/~harish/ + +Major contributors ordered by number of commits include: + + Garth N. Wells + Anders Logg + Johannes Ring + Joachim B. Haga + Roman Putanowicz + Ilmar Wilbers + +Minor contributors in chronological order include: + + Luk ShunTim + Kristoffer Selim + Peter-Jan Randewijk + Aron Wahlberg + Douglas N. Arnold + Andre Massing + Dimitris Tsarouchas + Krishna S. Rudraraju + Alexander Jarosch + Marie E. Rognes + Patrick Riesen + Gerd Wachsmuth + Johan Hake + Benjamin Kehlet + Richard Katz + Fredrik Valdmanis + Michele Marcionelli + +Missing or incorrect credits? 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Such new +versions will be similar in spirit to the present version, but may +differ in detail to address new problems or concerns. + + Each version is given a distinguishing version number. If the +Library as you received it specifies that a certain numbered version +of the GNU Lesser General Public License "or any later version" +applies to it, you have the option of following the terms and +conditions either of that published version or of any later version +published by the Free Software Foundation. If the Library as you +received it does not specify a version number of the GNU Lesser +General Public License, you may choose any version of the GNU Lesser +General Public License ever published by the Free Software Foundation. + + If the Library as you received it specifies that a proxy can decide +whether future versions of the GNU Lesser General Public License shall +apply, that proxy's public statement of acceptance of any version is +permanent authorization for you to choose that version for the +Library. diff --git a/ChangeLog b/ChangeLog new file mode 100644 index 0000000..759b88a --- /dev/null +++ b/ChangeLog @@ -0,0 +1,379 @@ +2011-12 Garth N. Wells + * Added initial support for opensuse12.1 +2011-12 Johannes Ring + * Updated to 1.0.0 versions all fenics packages + * Polished support for squeeze, sid, lucid, maverick and snow + leopard + * Polished petsc package + * Polished support for all fedora platforms +2011-12 Harish Narayanan + * Updated to recent versions of peripheral packages + * Mirrored cgal and scotch locally because upstream server is + flaky + * Polished support for lion + * Polished support for all fedora platforms + * Build full petsc on lion + * Updated trilinos package +2011-12 Joachim B Haga + * Added ability to install dependencies 'once:' +2011-11 Harish Narayanan + * Polished support for snow leopard and lion + * Polished support for oneiric + * Removed troublesome pastix from petsc package + * Stopped supporting gentoo +2011-11 Johan Hake + * Refined trilinos package +2011-11 Johannes Ring + * Added bison packages for debian-based platforms + * Updated to recent versions of all fenics packages + * Added libboost-math-dev to some platforms + * Fixed trilinos and scipy packages not finding umfpack on some + platforms +2011-10 Fredrik Valdmanis + * Added patch for petsc/slepc 3.2 +2011-10 Douglas N. Arnold + * Polished support for rhel6 +2011-10 Johannes Ring + * Added libboost-mpi-dev to newer ubuntu and debian platforms +2011-10 Andre Massing + * Updated cgal package +2011-10 Joachim B Haga + * Polish logging of individual package configure + * Updated syfi package +2011-10 Harish Narayanan + * Added logging of individual package configure + * Updated to recent versions of all fenics packages + * Updated petsc and slepc to 3.2 + * Updated dolfin download path to reflect new branching policy +2011-10 Garth N. Wells + * Updated trilinos package + * Polished support for oneiric + * Updated scotch package +2011-09 Johannes Ring + * Added mpi support to boost package + * Fixed boost mpi support on older ubuntu and debian platforms + * Updated cgal package to cmake +2011-09 Michele Marcionelli + * Added initial support for fedora15 + * Added patch to help trilinos compilation +2011-09 Andre Massing + * Added initial support for opensuse11.4 +2011-09 Harish Narayanan + * Incorporated Richard Katz's suggested port_select syntax change + * Added patch to compile petsc as a shared library on lion + * Polished support for lion + * Updated vtk package + * Added boost mpi to lion add snowleopard +2011-09 Fredrik Valdmanis + * Added initial support for lion +2011-08 Garth N. Wells + * Added initial support for oneiric +2011-08 Harish Narayanan + * Updated to recent versions of peripheral packages + * Cached recent MTL4 source on fenicsproject.org +2011-08 Benjamin Kehlet + * Reported bugs in few packages +2011-08 Johannes Ring + * Updated to recent versions of all fenics packages + * Polished support for rhel6 + * Allowed vtk to build without human interaction + * Fixed parmetis download link + * Fixed bug in mtl package +2011-07 Harish Narayanan + * Fixed bug in numpy package + * Added boost iostream to all debian and ubuntu platforms + * Fixed parmetis download link + * Fixed swig support by building it manually on some platforms +2011-07 Benjamin Kehlet + * Added pcre package +2011-06 Johan Hake + * Polished support for rhel5 +2011-06 Johannes Ring + * Fixed bug in suitesparse with metis package + * Debugged swig support on different platforms + * Updated syfi to build with cmake instead of scons +2011-05 Harish Narayanan + * Changed distribution license to GNU Lesser General Public + Licence Version 3 + * Incorporated Johannes' madlib build instructions + * Generalised paths to easier allow for different projects + * Removed unnecessary additions introduced by femdk support + * Polished support for natty +2011-05 Garth N. Wells + * Updated to recent versions of all packages + * Fixed scotch package +2011-05 Anders Logg + * Added support for natty +2011-04 Harish Narayanan + * Added Andre's suggested fix for Mac OS X gfortran petsc + compilation error +2011-03 Harish Narayanan + * Removed unused slepc patch + * Removed support for femdk +2011-02 Anders Logg + * Polished support for bigblue +2011-02 Johannes Ring + * Made maverick similar to lucid + * Fixed link to stable ufc +2011-02 Harish Narayanan + * Updated swig version + * Polished support for sid and squeeze + * Made fedora13 and fedora14 identical + * Updated to recent versions of peripheral packages + * Simplified stable fenics packages + * Polished support for snowleopard + * Updated to recent versions of all fenics packages +2011-01 Johannes Ring + * Fixed scotch package on debian and snowleopard + * Made sid and squeeze identical +2011-01 Joachim B Haga + * Converted petsc, slepc and trilinos to standard build chains + * Added support for separate dorsal_configure and dorsal_build + output + * Polished ML support in petsc + * Added support for running dolfin in valgrind +2011-01 Harish Narayanan + * Moved snowleopard to python27 +2011-01 Johan Hake + * Added ml support to petsc package +2011-01 Garth N. Wells + * Added support for rhel6 (and scientificlinux6) + * Updated petsc, scotch, boost, cmake and cgal packages +2010-12 Johannes Ring + * Removed run time path information from dolfin build +2010-12 Harish Narayanan + * Fixed bugs in petsc and mtl4 packages + * Made wget smarter about downloading files from flaky URLs + * Added generic cmake build option +2010-12 Gerd Wachsmuth + * Install actual files instead of making symlinks +2010-12 Garth N. Wells + * Added support for fedora14 + * Enabled trilinos for all supported platforms + * Updated petsc and trilinos versions +2010-11 Garth N. Wells + * Added pastix (multi-threaded LU) support to petsc + * Updated petsc and trilinos versions +2010-10 Harish Narayanan + * Updated fenics.org to fenicsproject.org to reflect move + * Updated slepc version +2010-09 Anders Logg + * Polished support for snowleopard + * Updated to recent versions of all fenics packages +2010-09 Garth N. Wells + * Updated to slepc 3.1-p2 +2010-09 Harish Narayanan + * Updated documentation to reflect new directory structure + * Updated the "one-click" installer + * Polished support for snowleopard + * Updated cmake builds to respect CONFOPTS +2010-08 Garth N. Wells + * Moved lenny to deprecated + * Moved sid to supported +2010-08 Marie E. Rognes + * Polished support for gentoo +2010-08 Harish Narayanan + * Polished support for snowleopard + * Added support for fedora machines without redhat-lsb + * Added scripts for auto-generating author lists and listing + unused packages and patches + * Removed several unused packages + * Fixed bugs related to new platform file placements + * Added support for 32/64-bit architecture-independent builds + * Fixed python crashing bug introduced by cmake on darwin + * Fixed breakages introduced in snowleopard + * Removed (nonexistent) support for xp + * Updated documentation to reflect new directory structure + * Updated the "one-click" installer +2010-08 Johannes Ring + * Added patch for scientificpython to help it detect numpy + * Modified trilinos package to account for the new cmake-based + install of its 10.x branch +2010-08 Anders Logg + * Fixed bugs introduced by move to petsc/slepc 3.1x + * Broke many things through several hasty changes + * Fixed breakages introduced in snowleopard + * Fixed missing malloc.h bug in parmetis + * Modified dolfin package to account for new cmake-based install + * Split platform files into supported, contributed and deprecated + * Fixed breakages introduced in ubuntu platforms + * Resumed mirroring files hosted on unstable servers + * Polished support for maverick + * Tested and corrected breakages in different platforms + * Updated to recent versions of all fenics packages +2010-08 Garth N. Wells + * Updated to petsc/slepc 3.1x + * Broke many things through several hasty changes + * Added initial support for maverick + * Added initial support for opensuse11.3 + * Added lib64 to library search path on 64bit machines + * Added out-of-source build support to cmake + * Fixed breakages introduced in fedora13 + * Fixed architecture-sniffing in scotch platform + * Polished support for opensuse11.3 + * Removed scons requirement from supported platform files + * Added initial support for squeeze + * Tested and corrected breakages in different platforms +2010-07 Douglas N. Arnold + * Added initial support for fedora13 +2010-07 Patrick Riesen + * Fixed armadillo package on 64-bit machines +2010-06 Harish Narayanan + * Updated to recent versions of all packages + * Updated documentation +2010-06 Alexander Jarosch + * Polished support for gentoo/sabayon + * Added initial support for gentoo/sabayon +2010-05 Harish Narayanan + * Added package for armadillo + * Removed ssl certificate checking +2010-05 Anders Logg + * Fixed bugs introduced by new directory structure +2010-04 Roman Putanowicz + * Generalised dorsal to handle projects other than FEniCS + * Added support for separate build directories +2010-04 Harish Narayanan + * Added initial support for fedora12 + * Polished support for fedora11 +2010-04 Joachim B Haga + * Added initial support for lucid + * Polished platform sniffing +2010-03 Harish Narayanan + * Updated to recent versions of all packages +2010-03 Krishna S. Rudraraju + * Fixed numpy link +2010-03 Dimitris Tsarouchas + * Polished parallel support on karmic +2010-03 Douglas N. Arnold + * Polished support for fedora11 + * Fixed gforge links +2010-03 Aron Wahlberg + * Fixed vtk on snowleopard +2010-02 Harish Narayanan + * Removed support for gts + * Modified the default installation location to be more elegant + * Added the ability to install single packages + * Enabled a parallel version of scotch + * Polished support for snowleopard + * Added package for MAdLib + * Updated to recent versions of all packages + * Added scientific python support to all platforms +2010-01 Harish Narayanan + * Fixed cgal error on leopard +2009-12 Anders Logg + * Added zenity support to the "one-click" installer +2009-12 Harish Narayanan + * Vastly improved documentation with the introduction of a small + usage manual + * Added initial version of the "one-click" installer + * Polished cgal package and added it to all platforms + * Added initial support for opensuse11.2 + * Added skip-based platform example + * Updated to recent versions of all packages +2009-11 Andre Massing + * Added initial support for cgal +2009-11 Harish Narayanan + * Polished support for fedora11 + * Added support for bzr repositories + * Reflected recent move of fenics projects to launchpad + * Removed default building of syfi and its dependencies +2009-11 Douglas N. Arnold + * Added initial support for fedora11 +2009-10 Harish Narayanan + * Polished support for bigblue + * Streamlined the main build script + * Improved support for snowleopard (and moved to MacPorts) + * Improved support for rhel5 + * Added ability to skip building of specific packages +2009-10 Garth N. Wells + * Improved support for rhel5 +2009-09 Joachim B Haga + * Prettified display of home directory in output +2009-09 Harish Narayanan + * Started experimenting with mumps support (in petsc) + * Added initial support for snowleopard + * Updated to recent versions of all packages +2009-09 Harish Narayanan + * Started mirroring files hosted on unstable servers + * Removed support for gutsy +2009-08 Anders Logg + * Added initial support for karmic +2009-07 Harish Narayanan + * Updated to recent versions of all packages + * Matched FEniCS package versions to Automatic Augustin +2009-06 Harish Narayanan + * Moved to the new DOLFIN build sequence +2009-05 Joachim B Haga + * Fixed patching sequence to ensure patches don't fail after the + first application +2009-05 Harish Narayanan + * Introduced a simple patching schema +2009-04 Anders Logg + * Added support for jaunty +2009-04 Harish Narayanan + * Updated to recent versions of all packages + * Worked around Trilinos bug with repeated installs + * Added support for git repositories + * Added package for swiginac +2009-03 Aron Wahlberg + * Improved support for tiger +2009-03 Peter-Jan Randewijk + * Added initial support for opensuse11.1 +2009-02 Harish Narayanan + * Added support for lenny + * Modified ufc package to account for new scons-based install + * Generalised petsc/slepc packages to handle slight differences in + 2x and 3x versions of the software + * Updated to recent versions of all packages +2009-01 Harish Narayanan + * Added support for fedora10 + * Added preliminary support for tiger + * Added support for etch + * Improved functionality of rhel4/rhel5 + * Introduced a mechanism for installing stable + versions of FEniCS packages + * Updated to recent versions of all packages +2008-11 Joachim B Haga + * Introduced the function 'default' instead of + 'export' to prevent clobbering existing variables +2008-11 Harish Narayanan + * Modularised DOLFIN package file and added remaining + dependencies + * Updated to recent versions of all packages +2008-10 Joachim B Haga + * Automatically guess the platform + * Create build log and rebuild script for individual + packages + * Support for parallel make/scons + * Improved slepc/petsc packages to avoid the need + for manually setting LD_LIBRARY_PATH + * Display platfom-specific instructions as part of + the build process +2008-10 Harish Narayanan + * Automatically probe for system python version + * Added preliminary support for xp +2008-09 Luk ShunTim + * Added support for sid +2008-09 Harish Narayanan + * Added support for leopard + * Removed the need for gfortran (in mpi, petsc, + suitesparse) + * Added support for custom configuration options + * Added colour progress/error reporting + * Updated to recent versions of all packages +2008-09 Ilmar Wilbers + * Added support for intrepid + * Added support for gutsy +2008-08 Harish Narayanan + * Changed distribution license to GPL version 3 + * Complete rewrite; modularised the scripts + * Created a framework for easy addition of additional + platforms + * Added support for rhel5 +2008-07 Ilmar Wilbers + * Added basic error reporting + * Replaced autotools-based builds (for dolfin, syfi) + with scons + * Added support for hardy +2007-06 Harish Narayanan + * Initial release for rhel4 diff --git a/DTM++.toolbox/packages/DTM++.toolbox.package b/DTM++.toolbox/packages/DTM++.toolbox.package new file mode 100644 index 0000000..5cfe10a --- /dev/null +++ b/DTM++.toolbox/packages/DTM++.toolbox.package @@ -0,0 +1,37 @@ +NAME=DTM++.toolbox +VERSION=deal.II-8.1.0 +BUILDCHAIN=ignore + +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/candi/toolbox/${NAME}/${COMPILER} +CONFIG_FILE=${MODULEFILE_PATH}/${VERSION} +CURRENT_MODULES=$(echo ${LOADEDMODULES} | sed 's/:/\ /') + +# ********************************************************************************** +package_specific_conf() { + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# DTM++.TOOLBOX module for use with 'environment-modules' package: +# +module-whatis "Provides the DTM++.TOOLBOX." +conflict candi/toolbox +module load ${CURRENT_MODULES} + +setenv TOOLBOX ${INSTALL_PATH} +setenv DEAL_II_DIR ${INSTALL_PATH} +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo +} + diff --git a/DTM++.toolbox/packages/dealii-snapshot.package b/DTM++.toolbox/packages/dealii-snapshot.package new file mode 100644 index 0000000..1ef1236 --- /dev/null +++ b/DTM++.toolbox/packages/dealii-snapshot.package @@ -0,0 +1,47 @@ +NAME=deal.II-svn +SOURCE=https://svn.dealii.org/trunk/deal.II +PACKING=svn +BUILDCHAIN=custom + +CONFOPTS=" \ +${DEAL_CONFOPTS} \ +" + +CONFOPTS="${CONFOPTS} \ +-D HDF5_DIR=${HDF5_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D TRILINOS_DIR=${TRILINOS_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D PETSC_DIR=${PETSC_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D SLEPC_DIR=${SLEPC_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D CMAKE_INSTALL_PREFIX:PATH="${INSTALL_PATH}" \ +" + +package_specific_setup () { + echo "Build ${NAME} in ${BUILD_PATH}/${NAME}" + mkdir -p "${BUILD_PATH}/${NAME}" + cd "${BUILD_PATH}/${NAME}" + + DEALII_SOURCE="${DOWNLOAD_PATH}/${EXTRACTSTO}" + + # configure + cmake ${CONFOPTS} ${DEALII_SOURCE} + + # make + make -j${PROCS} + make install +} + +package_specific_register () { + export DEALII_DIR=${INSTALL_PATH} +} diff --git a/DTM++.toolbox/packages/dealii-stable.package b/DTM++.toolbox/packages/dealii-stable.package new file mode 100644 index 0000000..281d946 --- /dev/null +++ b/DTM++.toolbox/packages/dealii-stable.package @@ -0,0 +1,8 @@ +VERSION=8.1.0 +NAME=deal.II-${VERSION} +SOURCE=https://dealii.googlecode.com/files/ +PACKING=.tar.gz +CHECKSUM=aa8fadc2ce5eb674f44f997461bf668d +BUILDCHAIN=cmake +EXTRACTSTO=deal.II + diff --git a/DTM++.toolbox/packages/dealii.package b/DTM++.toolbox/packages/dealii.package new file mode 100644 index 0000000..d587556 --- /dev/null +++ b/DTM++.toolbox/packages/dealii.package @@ -0,0 +1,49 @@ +NAME=deal.II-svn +SOURCE=https://svn.dealii.org/trunk/deal.II +PACKING=svn +BUILDCHAIN=cmake + +DEAL_CONFOPTS=" \ +-D CMAKE_BUILD_TYPE=DebugRelease \ +-D DEAL_II_COMPONENT_DOCUMENTATION:BOOL=OFF \ +-D DEAL_II_WITH_ARPACK:BOOL=OFF \ +-D DEAL_II_WITH_BOOST:BOOL=ON \ +-D DEAL_II_WITH_FUNCTIONPARSER:BOOL=ON \ +-D DEAL_II_WITH_LAPACK:BOOL=ON \ +-D DEAL_II_WITH_METIS:BOOL=OFF \ +-D DEAL_II_WITH_MUMPS:BOOL=OFF \ +-D DEAL_II_WITH_MPI:BOOL=ON \ +-D DEAL_II_WITH_NETCDF:BOOL=OFF \ +-D DEAL_II_WITH_P4EST:BOOL=ON \ +-D DEAL_II_WITH_PETSC:BOOL=OFF \ +-D DEAL_II_WITH_SLEPC:BOOL=OFF \ +-D DEAL_II_WITH_THREADS:BOOL=OFF \ +-D DEAL_II_WITH_TRILINOS:BOOL=ON \ +-D DEAL_II_WITH_UMFPACK:BOOL=ON \ +-D DEAL_II_WITH_ZLIB:BOOL=ON \ +-D DEAL_II_WITH_HDF5:BOOL=ON \ +" + +CONFOPTS=" \ +${DEAL_CONFOPTS} \ +" + +CONFOPTS="${CONFOPTS} \ +-D HDF5_DIR=${HDF5_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D TRILINOS_DIR=${TRILINOS_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D PETSC_DIR=${PETSC_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D SLEPC_DIR=${SLEPC_DIR} \ +" + +package_specific_register () { + export DEAL_II_DIR=${INSTALL_PATH} +} diff --git a/DTM++.toolbox/packages/hdf5.package b/DTM++.toolbox/packages/hdf5.package new file mode 100644 index 0000000..5ec2792 --- /dev/null +++ b/DTM++.toolbox/packages/hdf5.package @@ -0,0 +1,13 @@ +VERSION=1.8.12 +NAME=hdf5-${VERSION} +SOURCE=http://www.hdfgroup.org/ftp/HDF5/releases/${NAME}/src/ +PACKING=.tar.gz +CHECKSUM=d804802feb99b87fc668a90e6fa34411 +BUILDCHAIN=autotools + +CONFOPTS="--enable-shared --enable-parallel" + +package_specific_register () { + export HDF5_DIR=${INSTALL_PATH} +} + diff --git a/DTM++.toolbox/packages/hwloc.package b/DTM++.toolbox/packages/hwloc.package new file mode 100644 index 0000000..e0bbdc0 --- /dev/null +++ b/DTM++.toolbox/packages/hwloc.package @@ -0,0 +1,7 @@ +VERSION=1.9 +NAME=hwloc-${VERSION} +SOURCE=http://www.open-mpi.org/software/hwloc/v${VERSION}/downloads/ +PACKING=.tar.gz +CHECKSUM=1f9f9155682fe8946a97c08896109508 +BUILDCHAIN=autotools + diff --git a/DTM++.toolbox/packages/p4est.package b/DTM++.toolbox/packages/p4est.package new file mode 100644 index 0000000..bc1555b --- /dev/null +++ b/DTM++.toolbox/packages/p4est.package @@ -0,0 +1,89 @@ +NAME=p4est-0.3.4.2 +SOURCE=http://www.p4est.org/tarball/ +PACKING=.tar.gz +CHECKSUM=ef38ea3be84628b1548188106a5b01e7 +BUILDCHAIN=custom + +package_specific_setup () { + function bdie () { + echo "Error: $@" + exit 1 + } + + if test -z "$CFLAGS" -a -z "$P4EST_CFLAGS_FAST" ; then + export CFLAGS_FAST="-O2" + else + export CFLAGS_FAST="$CFLAGS $P4EST_CFLAGS_FAST" + fi + echo "CFLAGS_FAST: $CFLAGS_FAST" + + if test -z "$CFLAGS" -a -z "$P4EST_CFLAGS_DEBUG" ; then + export CFLAGS_DEBUG="-O0 -g" + else + export CFLAGS_DEBUG="$CFLAGS $P4EST_CFLAGS_DEBUG" + fi + echo "CFLAGS_DEBUG: $CFLAGS_DEBUG" + + # choose names for fast and debug build directories + BUILD_FAST="${BUILD_PATH}/${NAME}/FAST" + BUILD_DEBUG="${BUILD_PATH}/${NAME}/DEBUG" + + # choose names for fast and debug installation directories + INSTALL_FAST="${INSTALL_PATH}/${NAME}/FAST" + INSTALL_DEBUG="${INSTALL_PATH}/${NAME}/DEBUG" + + echo + echo "This script tries configure and build the p4est library." + echo "Build FAST: $BUILD_FAST" + echo "Build DEBUG: $BUILD_DEBUG" + echo "Install FAST: $INSTALL_FAST" + echo "Install DEBUG: $INSTALL_DEBUG" + echo "Checking environment: CFLAGS P4EST_CFLAGS_FAST P4EST_CFLAGS_DEBUG" + + test -f "${UNPACK_PATH}/${EXTRACTSTO}/src/p4est.h" || bdie "Main header file missing" + test -f "${UNPACK_PATH}/${EXTRACTSTO}/configure" || bdie "Configure script missing" + + echo "See output in files .../config.output and .../make.output" + echo + + # remove old versions + if test -d "${BUILD_PATH}/${NAME}"; then + rm -rf "${BUILD_PATH}/${NAME}" + fi + + echo "Build FAST version in $BUILD_FAST" + mkdir -p "$BUILD_FAST" + cd "$BUILD_FAST" + "${UNPACK_PATH}/${EXTRACTSTO}/configure" --enable-mpi --enable-shared \ + --disable-vtk-binary --without-blas \ + --prefix="$INSTALL_FAST" CFLAGS="$CFLAGS_FAST" \ + CPPFLAGS="-DSC_LOG_PRIORITY=SC_LP_ESSENTIAL" \ + "$@" > config.output || bdie "Error in configure" + make -C sc -j${PROCS} > make.output || bdie "Error in make sc" + make -j${PROCS} >> make.output || bdie "Error in make p4est" + make install >> make.output || bdie "Error in make install" + echo "FAST version installed in $INSTALL_FAST" + + echo + echo "Build DEBUG version in $BUILD_DEBUG" + mkdir -p "$BUILD_DEBUG" + cd "$BUILD_DEBUG" + "${UNPACK_PATH}/${EXTRACTSTO}/configure" --enable-debug --enable-mpi --enable-shared \ + --disable-vtk-binary --without-blas \ + --prefix="$INSTALL_DEBUG" CFLAGS="$CFLAGS_DEBUG" \ + CPPFLAGS="-DSC_LOG_PRIORITY=SC_LP_ESSENTIAL" \ + "$@" > config.output || bdie "Error in configure" + make -C sc -j${PROCS} > make.output || bdie "Error in make sc" + make -j${PROCS} >> make.output || bdie "Error in make p4est" + make install >> make.output || bdie "Error in make install" + echo "DEBUG version installed in $INSTALL_DEBUG" + echo + + cd "${BUILD_PATH}/${NAME}" + touch dorsal_successful_build +} + + +package_specific_register () { + export P4EST_DIR=${INSTALL_PATH}/${NAME} +} diff --git a/DTM++.toolbox/packages/trilinos.package b/DTM++.toolbox/packages/trilinos.package new file mode 100644 index 0000000..4b7e3e2 --- /dev/null +++ b/DTM++.toolbox/packages/trilinos.package @@ -0,0 +1,27 @@ +VERSION=11.8.1 +NAME=trilinos-${VERSION}-Source +SOURCE=http://trilinos.sandia.gov/download/files/ +PACKING=.tar.gz +CHECKSUM=3c9465b6d63d824e9dc0365ca73c3370 +BUILDCHAIN=cmake + +CONFOPTS="-D Trilinos_ENABLE_OpenMP:BOOL=OFF \ + -D TPL_ENABLE_TBB:BOOL=OFF \ + -D Trilinos_ENABLE_OPTIONAL_PACKAGES:BOOL=ON \ + -D Trilinos_ENABLE_Didasko:BOOL=ON \ + -D Trilinos_ENABLE_Sacado:BOOL=ON \ + -D Trilinos_ENABLE_Stratimikos:BOOL=ON \ + -D CMAKE_BUILD_TYPE:STRING=RELEASE \ + -D CMAKE_CXX_FLAGS:STRING=-fPIC -g -O3 \ + -D CMAKE_C_FLAGS:STRING=-fPIC -g -O3 \ + -D CMAKE_FORTRAN_FLAGS:STRING=-g -O5 \ + -D Trilinos_EXTRA_LINK_FLAGS:STRING=-lgfortran \ + -D CMAKE_VERBOSE_MAKEFILE:BOOL=FALSE \ + -D Trilinos_VERBOSE_CONFIGURE:BOOL=FALSE \ + -D TPL_ENABLE_MPI:BOOL=ON \ + -D BUILD_SHARED_LIBS:BOOL=ON" + +package_specific_register () { + export TRILINOS_DIR=${INSTALL_PATH} +} + diff --git a/DTM++.toolbox/platforms/.single b/DTM++.toolbox/platforms/.single new file mode 100644 index 0000000..e69de29 diff --git a/DTM++.toolbox/platforms/contributed/fedora19.platform b/DTM++.toolbox/platforms/contributed/fedora19.platform new file mode 100644 index 0000000..acd426b --- /dev/null +++ b/DTM++.toolbox/platforms/contributed/fedora19.platform @@ -0,0 +1,34 @@ +# Fedora 19 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y svn \ +# @development-tools gcc-c++ openmpi-devel cmake \ +# blas blas-devel lapack lapack-devel \ +# boost boost-devel boost-python boost-openmpi boost-openmpi-devel boost-openmpi-python \ +# doxygen graphviz graphviz-devel splint qt-devel' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. +# +# Check available and loaded modules: +# +# module avial +# module list +# +# and load an appropriate module, e.g.: +# +# module load openmpi-x86_64 +## + +# Platform specific variables +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +p4est +hdf5 +trilinos +dealii +) diff --git a/DTM++.toolbox/platforms/supported/fedora20.platform b/DTM++.toolbox/platforms/supported/fedora20.platform new file mode 100644 index 0000000..db6fe3a --- /dev/null +++ b/DTM++.toolbox/platforms/supported/fedora20.platform @@ -0,0 +1,37 @@ +# Fedora 20 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y svn \ +# @development-tools gcc-c++ openmpi-devel cmake \ +# blas blas-devel lapack lapack-devel \ +# boost boost-devel boost-python boost-openmpi boost-openmpi-devel boost-openmpi-python \ +# doxygen graphviz graphviz-devel splint qt-devel' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. +# +# Check available and loaded modules: +# +# module avial +# module list +# +# and load an appropriate module, e.g.: +# +# module load openmpi-x86_64 +## + +# Platform specific variables +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +once:hwloc +once:hdf5 +once:p4est +once:trilinos +dealii +skip:DTM++.toolbox +) + diff --git a/DTM++.toolbox/platforms/supported/rhel6.platform b/DTM++.toolbox/platforms/supported/rhel6.platform new file mode 100644 index 0000000..1e85b57 --- /dev/null +++ b/DTM++.toolbox/platforms/supported/rhel6.platform @@ -0,0 +1,35 @@ +# RHEL 6 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y svn \ +# @development-tools gcc-c++ openmpi-devel cmake \ +# blas blas-devel lapack lapack-devel \ +# boost boost-devel boost-python boost-openmpi boost-openmpi-devel boost-openmpi-python \ +# doxygen graphviz graphviz-devel splint qt-devel' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. +# +# Check available and loaded modules: +# +# module avial +# module list +# +# and load an appropriate module, e.g.: +# +# module load openmpi-x86_64 +## + +# Platform specific variables +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +once:hdf5 +once:p4est +once:trilinos +dealii +skip:DTM++.toolbox +) diff --git a/DTM++.toolbox/platforms/supported/saucy.platform b/DTM++.toolbox/platforms/supported/saucy.platform new file mode 100644 index 0000000..6a94355 --- /dev/null +++ b/DTM++.toolbox/platforms/supported/saucy.platform @@ -0,0 +1,22 @@ +# Fedora 20 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'apt-get install build-essential automake autoconf gfortran \ +# libblas-dev liblapack-dev splint openmpi1.6 cmake git subversion' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. +## + +# Platform specific variables + +# Define the packages this platform needs +PACKAGES=( +once:hdf5 +once:p4est +once:trilinos +dealii +skip:DTM++.toolbox +) diff --git a/FEniCS/packages/FEniCS-prepare.package b/FEniCS/packages/FEniCS-prepare.package new file mode 100644 index 0000000..e057278 --- /dev/null +++ b/FEniCS/packages/FEniCS-prepare.package @@ -0,0 +1,25 @@ +NAME=FEniCS_prepare +BUILDCHAIN=ignore + +package_specific_conf() { + # Generate FEniCS folders + mkdir -p ${INSTALL_PATH}/conf + mkdir -p ${INSTALL_PATH}/bin + mkdir -p ${INSTALL_PATH}/include + mkdir -p ${INSTALL_PATH}/lib + mkdir -p ${INSTALL_PATH}/lib/python${PYTHONVER}/site-packages + mkdir -p ${INSTALL_PATH}/share + export PATH=${INSTALL_PATH}/bin:${PATH} + export LD_LIBRARY_PATH=${INSTALL_PATH}/lib:${LD_LIBRARY_PATH} + export DYLD_LIBRARY_PATH=${INSTALL_PATH}/lib:${DYLD_LIBRARY_PATH} + export PYTHONPATH=${INSTALL_PATH}/lib/python${PYTHONVER}/site-packages:${PYTHONPATH} + export PKG_CONFIG_PATH=${INSTALL_PATH}/lib/pkgconfig:${PKG_CONFIG_PATH} + + # Add some extra library paths for 64 bit machines + if [ "$ARCH" == "x86_64" ]; then + export LD_LIBRARY_PATH=${INSTALL_PATH}/lib64:${LD_LIBRARY_PATH} + export DYLD_LIBRARY_PATH=${INSTALL_PATH}/lib64:${DYLD_LIBRARY_PATH} + export PYTHONPATH=${INSTALL_PATH}/lib64/python${PYTHONVER}/site-packages:${PYTHONPATH} + fi +} + diff --git a/FEniCS/packages/FEniCS.package b/FEniCS/packages/FEniCS.package new file mode 100644 index 0000000..6d65396 --- /dev/null +++ b/FEniCS/packages/FEniCS.package @@ -0,0 +1,90 @@ +NAME=FEniCS +VERSION=1.3.0 +BUILDCHAIN=ignore + +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/NVRI.software/toolbox/${NAME} +CONFIG_FILE=${MODULEFILE_PATH}/${VERSION} +CURRENT_MODULES=$(echo ${LOADEDMODULES} | sed 's/:/\ /') + +# ********************************************************************************** +package_specific_conf() { + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# FEniCS module for use with 'environment-modules' package: +# + +conflict NVRI.software/toolbox + +module load ${CURRENT_MODULES} + +# Define prefix so PATH and MANPATH can be updated. +setenv INSTALL_PATH ${INSTALL_PATH} +prepend-path PATH ${INSTALL_PATH}/bin +prepend-path PYTHONPATH ${INSTALL_PATH}/lib/python${PYTHONVER}/site-packages +prepend-path PYTHONPATH ${INSTALL_PATH}/lib64/python${PYTHONVER}/site-packages +prepend-path LD_LIBRARY_PATH ${INSTALL_PATH}/lib +prepend-path DYLD_LIBRARY_PATH ${INSTALL_PATH}/lib +prepend-path PKG_CONFIG_PATH ${INSTALL_PATH}/lib/pkgconfig +prepend-path MANPATH ${INSTALL_PATH}/share/man +prepend-path CPLUS_INCLUDE_PATH ${INSTALL_PATH}/include +prepend-path CMAKE_PREFIX_PATH ${INSTALL_PATH} + +setenv BOOST_DIR ${INSTALL_PATH} +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo + + # Generate configuration file for building against FEniCS installation + + mkdir -p $INSTALL_PATH/share/fenics + CONFIG_FILE=$INSTALL_PATH/share/fenics/fenics.conf + rm -f $CONFIG_FILE + echo " +# Source this file to set up your environment for building against FEniCS + +# Standard paths +export INSTALL_PATH=${INSTALL_PATH} +export PATH=\$INSTALL_PATH/bin:\$PATH +export PYTHONPATH=\$INSTALL_PATH/lib/python${PYTHONVER}/site-packages:\$PYTHONPATH +export LD_LIBRARY_PATH=\$INSTALL_PATH/lib:\$LD_LIBRARY_PATH +export DYLD_LIBRARY_PATH=\$INSTALL_PATH/lib:\$DYLD_LIBRARY_PATH +export PKG_CONFIG_PATH=\$INSTALL_PATH/lib/pkgconfig:\$PKG_CONFIG_PATH +export MANPATH=\$INSTALL_PATH/share/man:\$MANPATH +export CPLUS_INCLUDE_PATH=\$INSTALL_PATH/include:\$CPLUS_INCLUDE_PATH +export CMAKE_PREFIX_PATH=\$INSTALL_PATH:\$CMAKE_PREFIX_PATH +" >> $CONFIG_FILE + + for PACKAGE in ${PACKAGES[@]} + do + case ${PACKAGE} in + *boost) echo " +export BOOST_DIR=\$INSTALL_PATH +" >> $CONFIG_FILE;; + *vtk | *vtkwithqt) echo " +# FIXME: This needs to be updated when the VTK version is changed +export LD_LIBRARY_PATH=\$INSTALL_PATH/lib/vtk-5.8:\$LD_LIBRARY_PATH +export DYLD_LIBRARY_PATH=\$INSTALL_PATH/lib/vtk-5.8:\$DYLD_LIBRARY_PATH +" >> $CONFIG_FILE;; + esac + done + + echo "To update your environment variables, run the following command:" + echo + cecho ${GOOD} " source $CONFIG_FILE" + echo + echo "For future reference, we recommend that you add this command to your" + echo "configuration (.bashrc, .profile or similar)." + echo +} diff --git a/FEniCS/packages/armadillo.package b/FEniCS/packages/armadillo.package new file mode 100644 index 0000000..4bb8419 --- /dev/null +++ b/FEniCS/packages/armadillo.package @@ -0,0 +1,26 @@ +NAME=armadillo-3.6.1 +SOURCE=http://downloads.sourceforge.net/arma/ +PACKING=.tar.gz +CHECKSUM=cf0e72fbd2ed07d9fbde01ec8feee953 +BUILDCHAIN=cmake + +CONFOPTS="-D CMAKE_INSTALL_PREFIX:PATH=${INSTALL_PATH} + -D INSTALL_LIB_DIR:STRING=lib" + +if [ ! -z "${ATLAS_LIB_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -D LAPACK_LIBRARY:FILEPATH=${ATLAS_LIB_DIR}/liblapack.a + -D BLAS_LIBRARY:FILEPATH=${ATLAS_LIB_DIR}/libatlas.a" +fi + +package_specific_setup() { + # Apply patch to prevent Armadillo from picking up MKL + # when ATLAS_LIB_DIR is defined + if [ ! -z "${ATLAS_LIB_DIR}" ]; then + patch -p1 --forward < ${ORIG_DIR}/FEniCS/patches/armadillo_no_mkl.patch || true + fi +} + +package_specific_register () { + export ARMADILLO_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/atlas.package b/FEniCS/packages/atlas.package new file mode 100644 index 0000000..552301e --- /dev/null +++ b/FEniCS/packages/atlas.package @@ -0,0 +1,70 @@ +# ATLAS package. This package also provides LAPACK. + +NAME=atlas3.10.0-with-lapack-3.4.2 +SOURCE=http://fenicsproject.org/pub/software/contrib/ +PACKING=.tar.bz2 +BUILDCHAIN=custom +EXTRACTSTO=ATLAS + +package_specific_build () { + + # Try to change CPU frequency + if [ x$CPU_SCALING == "xyes" ]; then + + read -p "SCALING CPU" + + # Determine number of cores and frequency + CORES=`grep processor /proc/cpuinfo | sort | awk '{print $3}'` + NUM_CORES=`grep processor /proc/cpuinfo | sort | tail -1 | awk '{print $3}'` + MAX_FREQ=`cpufreq-info | grep limits | awk '{print $6$7}' | tail -1` + + echo + echo "It looks like your machine has $NUM_CORES cores and that the maximum" + echo "CPU frequency is $MAX_FREQ." + echo + + echo + echo "Adjusting CPU frequency and governor. Be patient, this may take some time." + for i in $CORES; do + echo "Adjusting frequency for core $i" + sudo cpufreq-set -c $i -u $MAX_FREQ + sudo cpufreq-selector -g performance -c $i + done + + fi + + # Create and enter build directory + mkdir -p build + cd build + + # Determine CPU frequency + CPU_MHZ=`cat /proc/cpuinfo | grep "cpu MHz" | awk '{print $4}' | cut -d'.' -f1 | tail -1` + + # Configure ATLAS + ../configure -b 64 -D c -DPentiumCPS=$CPU_MHZ --shared \ + --prefix=$INSTALL_PATH \ + --with-netlib-lapack-tarfile=../lapack-3.4.2.tgz + + # Build + make build + + # Check + make check + make ptcheck + make time + + # Install + make install +} + +package_specific_install () { + echo "Nothing to do here, install handled by ATLAS." +} + +package_specific_register () { + export ATLAS_DIR=${INSTALL_PATH} + export ATLAS_LIB_DIR=${INSTALL_PATH}/lib + + # This is important for building Trilinos + export BLAS_LIBRARY_NAMES="cblas f77blas atlas" +} diff --git a/FEniCS/packages/automake.package b/FEniCS/packages/automake.package new file mode 100644 index 0000000..ef8ea0d --- /dev/null +++ b/FEniCS/packages/automake.package @@ -0,0 +1,6 @@ +VERSION=1.14 +NAME=automake-${VERSION} +SOURCE=http://ftp.gnu.org/gnu/automake/ +PACKING=.tar.gz +BUILDCHAIN=autotools +#EXTRACTSTO=Mesa-${VERSION} \ No newline at end of file diff --git a/FEniCS/packages/bazaar.package b/FEniCS/packages/bazaar.package new file mode 100644 index 0000000..eb89de9 --- /dev/null +++ b/FEniCS/packages/bazaar.package @@ -0,0 +1,5 @@ +NAME=bzr-2.5.1 +SOURCE=http://launchpad.net/bzr/2.5/2.5.1/+download/ +PACKING=.tar.gz +CHECKSUM=ac5079858364a046071000d5cdccb67b +BUILDCHAIN=python diff --git a/FEniCS/packages/blas.package b/FEniCS/packages/blas.package new file mode 100644 index 0000000..9c22ba1 --- /dev/null +++ b/FEniCS/packages/blas.package @@ -0,0 +1,21 @@ +NAME=blas +SOURCE=http://netlib.org/blas/ +PACKING=.tgz +BUILDCHAIN=custom +EXTRACTSTO=BLAS + +package_specific_build () { + sed -i 's/gfortran/mpif90/g' make.inc + sed -i 's/-O3/-O3 -fPIC/g' make.inc + sed -i 's/blas$(PLAT).a/libblas.a/g' make.inc + make -j ${PROCS} +} + +package_specific_install () { + cp *.a ${INSTALL_PATH}/lib/ +} + +package_specific_register () { + export BLAS_DIR=${INSTALL_PATH} + export LAPACKANDBLAS_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/boost.package b/FEniCS/packages/boost.package new file mode 100644 index 0000000..025f136 --- /dev/null +++ b/FEniCS/packages/boost.package @@ -0,0 +1,27 @@ +NAME=boost_1_55_0 +SOURCE=http://downloads.sourceforge.net/boost/ +PACKING=.tar.bz2 +CHECKSUM=d6eef4b4cacb2183f2bf265a5a03a354 +BUILDCHAIN=custom + +if [ ! -z "${BZIP2_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -sNO_BZIP2=0 + -sBZIP2_BINARY=bz2 + -sBZIP2_INCLUDE=${BZIP2_DIR}/include + -sBZIP2_LIBPATH=${BZIP2_DIR}/lib" +fi + +package_specific_build () { + cp -rf ${UNPACK_PATH}/${NAME}/* . + ./bootstrap.sh --prefix=${INSTALL_PATH} + echo "using mpi ;" > user-config.jam + ./b2 -j ${PROCS} --user-config=user-config.jam --build-dir=candi_build_dir link=shared install ${CONFOPTS} +} + +package_specific_register () { + export BOOST_ROOT=${INSTALL_PATH} + export BOOST_INCLUDEDIR=${INSTALL_PATH}/include + export BOOST_LIBRARYDIR=${INSTALL_PATH}/lib + export BOOST_USE_MULTITHREADED=OFF +} diff --git a/FEniCS/packages/bzip2.package b/FEniCS/packages/bzip2.package new file mode 100644 index 0000000..d939e16 --- /dev/null +++ b/FEniCS/packages/bzip2.package @@ -0,0 +1,14 @@ +NAME=bzip2-1.0.6 +SOURCE=http://bzip.org/1.0.6/ +PACKING=.tar.gz +BUILDCHAIN=custom + +package_specific_build () { + sed -i 's/^CFLAGS=-Wall/CFLAGS=-fPIC -Wall/g' Makefile + make + make install PREFIX=${INSTALL_PATH} +} + +package_specific_register () { + export BZIP2_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/cgal.package b/FEniCS/packages/cgal.package new file mode 100644 index 0000000..7a534f4 --- /dev/null +++ b/FEniCS/packages/cgal.package @@ -0,0 +1,20 @@ +NAME=CGAL-4.3 +SOURCE=http://fenicsproject.org/pub/software/contrib/ +PACKING=.tar.gz +CHECKSUM=3fa2d43adbf5c05d76c5ec01f5033cc9 +BUILDCHAIN=cmake + +CONFOPTS="-D CMAKE_BUILD_TYPE:STRING=Release + -D BUILD_SHARED_LIBS:BOOL=ON + -D WITH_CGAL_Core:BOOL=OFF + -D WITH_CGAL_ImageIO:BOOL=OFF + -D WITH_CGAL_Qt3:BOOL=OFF + -D WITH_CGAL_Qt4:BOOL=OFF" + +if [ ! -z "${BOOST_USE_MULTITHREADED}" ]; then + CONFOPTS="${CONFOPTS} -D Boost_USE_MULTITHREADED:BOOL=${BOOST_USE_MULTITHREADED}" +fi + +package_specific_register () { + export CGAL_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/cln.package b/FEniCS/packages/cln.package new file mode 100644 index 0000000..11341ae --- /dev/null +++ b/FEniCS/packages/cln.package @@ -0,0 +1,4 @@ +NAME=cln-1.3.2 +SOURCE=ftp://ftpthep.physik.uni-mainz.de/pub/gnu/ +PACKING=.tar.bz2 +BUILDCHAIN=autotools diff --git a/FEniCS/packages/cmake.package b/FEniCS/packages/cmake.package new file mode 100644 index 0000000..b2817ed --- /dev/null +++ b/FEniCS/packages/cmake.package @@ -0,0 +1,9 @@ +NAME=cmake-2.8.12.1 +SOURCE=http://www.cmake.org/files/v2.8/ +PACKING=.tar.gz +BUILDCHAIN=autotools + +package_specific_setup () { + ./bootstrap --prefix=${INSTALL_PATH} + export CMAKE_LIBRARY_PATH=${INSTALL_PATH} +} diff --git a/FEniCS/packages/cppunit.package b/FEniCS/packages/cppunit.package new file mode 100644 index 0000000..909240c --- /dev/null +++ b/FEniCS/packages/cppunit.package @@ -0,0 +1,8 @@ +NAME=cppunit-1.12.1 +SOURCE=http://downloads.sourceforge.net/cppunit/ +PACKING=.tar.gz +BUILDCHAIN=autotools + +package_specific_register () { + export CPPUNIT_DIR=${INSTALL_PATH} +} \ No newline at end of file diff --git a/FEniCS/packages/cusp.package b/FEniCS/packages/cusp.package new file mode 100644 index 0000000..bb34b88 --- /dev/null +++ b/FEniCS/packages/cusp.package @@ -0,0 +1,9 @@ +NAME=cusp-v0.3.1 +SOURCE=http://cusp-library.googlecode.com/files/ +PACKING=.zip +BUILDCHAIN=custom +EXTRACTSTO=cusp + +package_specific_register () { + export CUSP_DIR=${DOWNLOAD_PATH} +} diff --git a/FEniCS/packages/cython.package b/FEniCS/packages/cython.package new file mode 100644 index 0000000..b3ade83 --- /dev/null +++ b/FEniCS/packages/cython.package @@ -0,0 +1,5 @@ +VERSION=0.19.2 +NAME=Cython-${VERSION} +SOURCE=http://cython.org/release/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/dolfin-adjoint.package b/FEniCS/packages/dolfin-adjoint.package new file mode 100644 index 0000000..1704c0f --- /dev/null +++ b/FEniCS/packages/dolfin-adjoint.package @@ -0,0 +1,4 @@ +NAME=dolfin-adjoint +SOURCE=lp: +PACKING=bzr +BUILDCHAIN=python diff --git a/FEniCS/packages/dolfin-snapshot.package b/FEniCS/packages/dolfin-snapshot.package new file mode 100644 index 0000000..9215599 --- /dev/null +++ b/FEniCS/packages/dolfin-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=dolfin-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/dolfin/ +PACKING=.tar.gz diff --git a/FEniCS/packages/dolfin-stable.package b/FEniCS/packages/dolfin-stable.package new file mode 100644 index 0000000..2571e31 --- /dev/null +++ b/FEniCS/packages/dolfin-stable.package @@ -0,0 +1,14 @@ +VERSION=1.3.0 +NAME=dolfin-${VERSION} +SOURCE=https://bitbucket.org/fenics-project/dolfin/downloads/ +PACKING=.tar.gz +CHECKSUM=bc5b9f18ee7738b2e9e6768c7aa57c58 + +package_specific_setup () { + # Let CMake picks correct VTK, follow-up of issue151 + # https://bitbucket.org/fenics-project/dolfin/issue/151 + # Applies to DOLFIN 1.3.0, not applicable to 1.3.0+. + if [ "$VERSION" == "1.3.0" ]; then + patch -p1 --forward < ${ORIG_DIR}/FEniCS/patches/dolfin-1.3.0-vtk.patch || true + fi +} diff --git a/FEniCS/packages/dolfin.package b/FEniCS/packages/dolfin.package new file mode 100644 index 0000000..1fd4c39 --- /dev/null +++ b/FEniCS/packages/dolfin.package @@ -0,0 +1,42 @@ +NAME=dolfin +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=cmake + +CONFOPTS="-DCGAL_DISABLE_ROUNDING_MATH_CHECK:BOOL=ON" + +if [ -x "${SWIG_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D SWIG_EXECUTABLE:FILEPATH=${SWIG_EXECUTABLE}" +fi + +if [ ! -z "${PYTHON_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_EXECUTABLE:FILEPATH=${PYTHON_EXECUTABLE}" +fi + +if [ ! -z "${PYTHON_INCLUDE_DIR}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_INCLUDE_DIR:PATH=${PYTHON_INCLUDE_DIR}" +fi + +if [ ! -z "${PYTHON_LIBRARY}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_LIBRARY:PATH=${PYTHON_LIBRARY}" +fi + +if [ ! -z "${BOOST_USE_MULTITHREADED}" ]; then + CONFOPTS="${CONFOPTS} -D Boost_USE_MULTITHREADED:BOOL=${BOOST_USE_MULTITHREADED}" +fi + +if [ ! -z "${BLAS_LIBRARIES}" ]; then + CONFOPTS="${CONFOPTS} -D BLAS_LIBRARIES:FILEPATH=\"${BLAS_LIBRARIES}\"" +fi + +if [ ! -z "${ATLAS_LIB_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -D LAPACK_LIBRARIES=${ATLAS_LIB_DIR}/liblapack.a + -D BLAS_LIBRARIES=\"${ATLAS_LIB_DIR}/libcblas.a;${ATLAS_LIB_DIR}/libf77blas.a;${ATLAS_LIB_DIR}/libatlas.a\"" +fi + +if [ ! -z "${HDF5_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -D HDF5_INCLUDE_DIRS=${HDF5_DIR}/include" +fi + diff --git a/FEniCS/packages/dolfin_intel.package b/FEniCS/packages/dolfin_intel.package new file mode 100644 index 0000000..3869035 --- /dev/null +++ b/FEniCS/packages/dolfin_intel.package @@ -0,0 +1,30 @@ +VERSION=1.0-beta +NAME=dolfin-${VERSION} +SOURCE=http://launchpad.net/dolfin/trunk/${VERSION}/+download/ +PACKING=.tar.gz +BUILDCHAIN=cmake + +# Dolfin is compiled with GNU compiler because the Intel compiler used does not support +# the "tuple" template and it cannot read the boost headers properly. + +# Compiler flags are added to ensure proper linking to Intel MKL +COMPILERFLAGS="'-fPIC -DMPICH_IGNORE_CXX_SEEK -m64 -DMKL_ILP64 -lpthread -lmkl_rt -lifcore -lsvml'" + +CONFOPTS="-DCMAKE_SKIP_RPATH:BOOL=ON + -DCGAL_DISABLE_ROUNDING_MATH_CHECK:BOOL=ON + -D CMAKE_CXX_FLAGS:STRING=${COMPILERFLAGS} + -D CMAKE_C_FLAGS:STRING=${COMPILERFLAGS}" + +package_specific_setup () { +# The CMake Armadillo does not pass because it does not pass the correct linking options. +# The patch basically make the test pass all the time. + patch -p1 --forward < ${ORIG_DIR}/FEniCS/patches/dolfin-armadillo-test.patch || true +# Intel compiler cannot find iostream. Maybe because it is not in the intel mpi.h. + find . -name "*.cpp" | xargs sed -i -e 's,#include ,#include \n#include ,g' +# Link to intel MKL BLAS + export BLAS_DIR=/soft/intel/mkl/10.3.6.233/composer_xe_2011_sp1.6.233/mkl/lib/intel64 +} + +if [ -x "${SWIG_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D SWIG_EXECUTABLE:FILEPATH=${SWIG_EXECUTABLE}" +fi diff --git a/FEniCS/packages/dri2proto.package b/FEniCS/packages/dri2proto.package new file mode 100644 index 0000000..25c1a78 --- /dev/null +++ b/FEniCS/packages/dri2proto.package @@ -0,0 +1,5 @@ +VERSION=2.8 +NAME=dri2proto-${VERSION} +SOURCE=http://ftp.x.org/pub/individual/proto/ +PACKING=.tar.gz +BUILDCHAIN=autotools \ No newline at end of file diff --git a/FEniCS/packages/eigen.package b/FEniCS/packages/eigen.package new file mode 100644 index 0000000..5dfa917 --- /dev/null +++ b/FEniCS/packages/eigen.package @@ -0,0 +1,9 @@ +NAME=eigen3_3.2.0 +SOURCE=http://fenicsproject.org/pub/software/contrib/ +PACKING=.tar.bz2 +BUILDCHAIN=cmake +EXTRACTSTO=eigen-eigen-ffa86ffb5570 + +package_specific_register () { + export EIGEN_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/ferari-snapshot.package b/FEniCS/packages/ferari-snapshot.package new file mode 100644 index 0000000..279e8a0 --- /dev/null +++ b/FEniCS/packages/ferari-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=ferari-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/ferari/ +PACKING=.tar.gz diff --git a/FEniCS/packages/ferari-stable.package b/FEniCS/packages/ferari-stable.package new file mode 100644 index 0000000..fca36d5 --- /dev/null +++ b/FEniCS/packages/ferari-stable.package @@ -0,0 +1,5 @@ +VERSION=1.0.0 +NAME=ferari-${VERSION} +SOURCE=http://launchpad.net/ferari/trunk/${VERSION}/+download/ +PACKING=.tar.gz +CHECKSUM=e41ed02517f0e8832f27d24e7755c0e2 diff --git a/FEniCS/packages/ferari.package b/FEniCS/packages/ferari.package new file mode 100644 index 0000000..7df52f1 --- /dev/null +++ b/FEniCS/packages/ferari.package @@ -0,0 +1,4 @@ +NAME=ferari +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=python diff --git a/FEniCS/packages/ffc-snapshot.package b/FEniCS/packages/ffc-snapshot.package new file mode 100644 index 0000000..f24f5d9 --- /dev/null +++ b/FEniCS/packages/ffc-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=ffc-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/ffc/ +PACKING=.tar.gz diff --git a/FEniCS/packages/ffc-stable.package b/FEniCS/packages/ffc-stable.package new file mode 100644 index 0000000..3ebbacc --- /dev/null +++ b/FEniCS/packages/ffc-stable.package @@ -0,0 +1,5 @@ +VERSION=1.3.0 +NAME=ffc-${VERSION} +SOURCE=https://bitbucket.org/fenics-project/ffc/downloads/ +PACKING=.tar.gz +CHECKSUM=d57f736ff0b756935a5ffd7c8b30247b diff --git a/FEniCS/packages/ffc.package b/FEniCS/packages/ffc.package new file mode 100644 index 0000000..9d4fd69 --- /dev/null +++ b/FEniCS/packages/ffc.package @@ -0,0 +1,4 @@ +NAME=ffc +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=python diff --git a/FEniCS/packages/ffc_stable.package b/FEniCS/packages/ffc_stable.package new file mode 100644 index 0000000..8f7ff6d --- /dev/null +++ b/FEniCS/packages/ffc_stable.package @@ -0,0 +1,5 @@ +VERSION=1.3.0 +NAME=ffc-${VERSION} +SOURCE=http://launchpad.net/ffc/1.3.x/${VERSION}/+download/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/fiat-snapshot.package b/FEniCS/packages/fiat-snapshot.package new file mode 100644 index 0000000..7bc5383 --- /dev/null +++ b/FEniCS/packages/fiat-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=fiat-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/fiat/ +PACKING=.tar.gz diff --git a/FEniCS/packages/fiat-stable.package b/FEniCS/packages/fiat-stable.package new file mode 100644 index 0000000..0de3b06 --- /dev/null +++ b/FEniCS/packages/fiat-stable.package @@ -0,0 +1,6 @@ +VERSION=1.3.0 +NAME=fiat-${VERSION} +SOURCE=https://bitbucket.org/fenics-project/fiat/downloads/ +PACKING=.tar.gz +CHECKSUM=e12267262b97a40fea97c0dad9804dd7 + diff --git a/FEniCS/packages/fiat.package b/FEniCS/packages/fiat.package new file mode 100644 index 0000000..e279ab4 --- /dev/null +++ b/FEniCS/packages/fiat.package @@ -0,0 +1,4 @@ +NAME=fiat +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=python diff --git a/FEniCS/packages/gccxml.package b/FEniCS/packages/gccxml.package new file mode 100644 index 0000000..aebbeff --- /dev/null +++ b/FEniCS/packages/gccxml.package @@ -0,0 +1,4 @@ +NAME=gccxml +SOURCE=https://github.com/gccxml/ +PACKING=git +BUILDCHAIN=cmake diff --git a/FEniCS/packages/ginac.package b/FEniCS/packages/ginac.package new file mode 100644 index 0000000..854035f --- /dev/null +++ b/FEniCS/packages/ginac.package @@ -0,0 +1,4 @@ +NAME=ginac-1.6.1 +SOURCE=ftp://ftpthep.physik.uni-mainz.de/pub/GiNaC/ +PACKING=.tar.bz2 +BUILDCHAIN=autotools diff --git a/FEniCS/packages/git.package b/FEniCS/packages/git.package new file mode 100644 index 0000000..bf0ae39 --- /dev/null +++ b/FEniCS/packages/git.package @@ -0,0 +1,6 @@ +VERSION=1.8.0.2 +NAME=git-${VERSION} +SOURCE=http://git-core.googlecode.com/files/ +PACKING=.tar.gz +BUILDCHAIN=autotools +TARGETS=('' 'install prefix=${INSTALL_PATH}') diff --git a/FEniCS/packages/glib2.package b/FEniCS/packages/glib2.package new file mode 100644 index 0000000..e051b33 --- /dev/null +++ b/FEniCS/packages/glib2.package @@ -0,0 +1,4 @@ +NAME=glib-2.32.3 +SOURCE=http://ftp.gnome.org/pub/GNOME/sources/glib/2.32/ +PACKING=.tar.xz +BUILDCHAIN=autotools diff --git a/FEniCS/packages/glproto.package b/FEniCS/packages/glproto.package new file mode 100644 index 0000000..e45669c --- /dev/null +++ b/FEniCS/packages/glproto.package @@ -0,0 +1,5 @@ +VERSION=1.4.17 +NAME=glproto-${VERSION} +SOURCE=http://ftp.x.org/pub/individual/proto/ +PACKING=.tar.gz +BUILDCHAIN=autotools \ No newline at end of file diff --git a/FEniCS/packages/gmp.package b/FEniCS/packages/gmp.package new file mode 100644 index 0000000..56914a8 --- /dev/null +++ b/FEniCS/packages/gmp.package @@ -0,0 +1,9 @@ +NAME=gmp-5.0.5 +SOURCE=ftp://ftp.gnu.org/gnu/gmp/ +PACKING=.tar.bz2 +BUILDCHAIN=autotools +CONFOPTS="--enable-cxx" + +package_specific_register () { + export GMP_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/gtest.package b/FEniCS/packages/gtest.package new file mode 100644 index 0000000..b48c392 --- /dev/null +++ b/FEniCS/packages/gtest.package @@ -0,0 +1,20 @@ +NAME=gtest-1.6.0 +SOURCE=http://googletest.googlecode.com/files/ +PACKING=.zip +BUILDCHAIN=custom + +package_specific_build () { + mkdir -p build + cd build + cmake -DBUILD_SHARED_LIBS:BOOL=ON .. + make +} + +package_specific_install () { + cp -rf include/gtest ${INSTALL_PATH}/include/ + cp -f build/libgtest*.* ${INSTALL_PATH}/lib/ +} + +package_specific_register () { + export GTEST_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/h5py.package b/FEniCS/packages/h5py.package new file mode 100644 index 0000000..601826c --- /dev/null +++ b/FEniCS/packages/h5py.package @@ -0,0 +1,13 @@ +VERSION=2.2.0 +NAME=h5py-${VERSION} +SOURCE=http://h5py.googlecode.com/files/ +PACKING=.tar.gz +BUILDCHAIN=custom + +package_specific_build () { + if [ ! -z "${HDF5_DIR}" ]; then + python setup.py build --hdf5=${HDF5_DIR} --mpi=yes + fi + + python setup.py install --prefix=${INSTALL_PATH} +} diff --git a/FEniCS/packages/hdf5.package b/FEniCS/packages/hdf5.package new file mode 100644 index 0000000..e72daa5 --- /dev/null +++ b/FEniCS/packages/hdf5.package @@ -0,0 +1,21 @@ +VERSION=1.8.12 +NAME=hdf5-${VERSION} +SOURCE=http://www.hdfgroup.org/ftp/HDF5/releases/${NAME}/src/ +PACKING=.tar.gz +CHECKSUM=d804802feb99b87fc668a90e6fa34411 +BUILDCHAIN=autotools + +CONFOPTS="--with-pthread + --enable-unsupported + --enable-shared + --enable-production=yes + --enable-parallel=yes + --enable-largefile=yes + --with-default-api-version=v18" + +# --disable-sharedlib-rpath + +package_specific_register () { + export HDF5_DIR=${INSTALL_PATH} +} + diff --git a/FEniCS/packages/instant-snapshot.package b/FEniCS/packages/instant-snapshot.package new file mode 100644 index 0000000..f0fa964 --- /dev/null +++ b/FEniCS/packages/instant-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=instant-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/instant/ +PACKING=.tar.gz diff --git a/FEniCS/packages/instant-stable.package b/FEniCS/packages/instant-stable.package new file mode 100644 index 0000000..5cd2c8b --- /dev/null +++ b/FEniCS/packages/instant-stable.package @@ -0,0 +1,5 @@ +VERSION=1.3.0 +NAME=instant-${VERSION} +SOURCE=https://bitbucket.org/fenics-project/instant/downloads/ +PACKING=.tar.gz +CHECKSUM=5c25d2ce48ee761a7113f7a80b25327e diff --git a/FEniCS/packages/instant.package b/FEniCS/packages/instant.package new file mode 100644 index 0000000..4596048 --- /dev/null +++ b/FEniCS/packages/instant.package @@ -0,0 +1,4 @@ +NAME=instant +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=python diff --git a/FEniCS/packages/ipython.package b/FEniCS/packages/ipython.package new file mode 100644 index 0000000..b351ee6 --- /dev/null +++ b/FEniCS/packages/ipython.package @@ -0,0 +1,6 @@ +VERSION=0.11 +NAME=ipython-${VERSION} +SOURCE=http://archive.ipython.org/release/${VERSION}/ +PACKING=.tar.gz +BUILDCHAIN=python + diff --git a/FEniCS/packages/lapack.package b/FEniCS/packages/lapack.package new file mode 100644 index 0000000..304740c --- /dev/null +++ b/FEniCS/packages/lapack.package @@ -0,0 +1,23 @@ +VERSION=3.3.1 +NAME=lapack-${VERSION} +SOURCE=http://www.netlib.org/lapack/ +PACKING=.tgz +BUILDCHAIN=custom + +package_specific_build () { + cp make.inc.example make.inc + sed -i 's/gfortran/mpif90 -O3 -fPIC/g' make.inc + sed -i 's/lapack$(PLAT).a/liblapack.a/g' make.inc + sed -i 's/tmglib$(PLAT).a/libtmglib.a/g' make.inc + sed -i 's,../../blas$(PLAT).a,${INSTALL_PATH}/lib/libblas.a,g' make.inc + make lapack_install lib -j ${PROCS} +} + +package_specific_install () { + cp *.a ${INSTALL_PATH}/lib/ +} + +package_specific_register () { + export LAPACK_DIR=${INSTALL_PATH} + export LAPACKANDBLAS_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/libadjoint.package b/FEniCS/packages/libadjoint.package new file mode 100644 index 0000000..a16fa26 --- /dev/null +++ b/FEniCS/packages/libadjoint.package @@ -0,0 +1,8 @@ +NAME=libadjoint +SOURCE=lp: +PACKING=bzr +BUILDCHAIN=custom + +package_specific_build () { + make install prefix=${INSTALL_PATH} +} diff --git a/FEniCS/packages/libdrm.package b/FEniCS/packages/libdrm.package new file mode 100644 index 0000000..6db68b2 --- /dev/null +++ b/FEniCS/packages/libdrm.package @@ -0,0 +1,5 @@ +VERSION=2.4.46 +NAME=libdrm-${VERSION} +SOURCE=http://dri.freedesktop.org/libdrm/ +PACKING=.tar.gz +BUILDCHAIN=autotools \ No newline at end of file diff --git a/FEniCS/packages/libffi.package b/FEniCS/packages/libffi.package new file mode 100644 index 0000000..f8ed8cb --- /dev/null +++ b/FEniCS/packages/libffi.package @@ -0,0 +1,4 @@ +NAME=libffi-3.0.11 +SOURCE=ftp://sourceware.org/pub/libffi/ +PACKING=.tar.gz +BUILDCHAIN=autotools diff --git a/FEniCS/packages/libxml2.package b/FEniCS/packages/libxml2.package new file mode 100644 index 0000000..42c71ec --- /dev/null +++ b/FEniCS/packages/libxml2.package @@ -0,0 +1,11 @@ +VERSION=2.6.2 +NAME=libxml2-${VERSION} +SOURCE=ftp://xmlsoft.org/libxml2/old/ +PACKING=.tar.gz +BUILDCHAIN=custom + +package_specific_build () { + ./configure --prefix=${INSTALL_PATH} + make -j ${PROCS} + make install +} diff --git a/FEniCS/packages/madlib.package b/FEniCS/packages/madlib.package new file mode 100644 index 0000000..ce9e5f9 --- /dev/null +++ b/FEniCS/packages/madlib.package @@ -0,0 +1,9 @@ +NAME=madlib-1.3.0 +SOURCE=http://sites.uclouvain.be/madlib/sources/ +PACKING=.tar.gz +BUILDCHAIN=autotools +CONFOPTS="--enable-ann --enable-gmsh --enable-petsc --enable-extendedAPI" + +package_specific_setup () { + patch -p1 --forward < ${ORIG_DIR}/FEniCS/patches/madlib.patch || true +} diff --git a/FEniCS/packages/matplotlib.package b/FEniCS/packages/matplotlib.package new file mode 100644 index 0000000..35519cf --- /dev/null +++ b/FEniCS/packages/matplotlib.package @@ -0,0 +1,4 @@ +NAME=matplotlib-1.0.1 +SOURCE=http://sourceforge.net/projects/matplotlib/files/matplotlib/$NAME/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/mesa.package b/FEniCS/packages/mesa.package new file mode 100644 index 0000000..e36a0f9 --- /dev/null +++ b/FEniCS/packages/mesa.package @@ -0,0 +1,6 @@ +VERSION=9.2.1 +NAME=MesaLib-${VERSION} +SOURCE=ftp://ftp.freedesktop.org/pub/mesa/${VERSION}/ +PACKING=.tar.gz +BUILDCHAIN=autotools +EXTRACTSTO=Mesa-${VERSION} \ No newline at end of file diff --git a/FEniCS/packages/mpfr.package b/FEniCS/packages/mpfr.package new file mode 100644 index 0000000..6e20f8a --- /dev/null +++ b/FEniCS/packages/mpfr.package @@ -0,0 +1,15 @@ +VERSION=3.1.2 +NAME=mpfr-${VERSION} +SOURCE=http://www.mpfr.org/mpfr-3.1.2/ +PACKING=.tar.bz2 +BUILDCHAIN=custom + +package_specific_build () { + ./configure --prefix=${INSTALL_PATH} --enable-shared=yes --with-gmp=${GMP_DIR} + make -j ${PROCS} + make install +} + +package_specific_register () { + export MPFR_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/mpi4py.package b/FEniCS/packages/mpi4py.package new file mode 100644 index 0000000..9d6c1fa --- /dev/null +++ b/FEniCS/packages/mpi4py.package @@ -0,0 +1,5 @@ +VERSION=1.3.1 +NAME=mpi4py-${VERSION} +SOURCE=https://mpi4py.googlecode.com/files/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/mtl.package b/FEniCS/packages/mtl.package new file mode 100644 index 0000000..80414cf --- /dev/null +++ b/FEniCS/packages/mtl.package @@ -0,0 +1,13 @@ +NAME=MTL-4.0.8447-Linux +SOURCE=http://fenicsproject.org/pub/software/contrib/ +PACKING=.tar.bz2 +CHECKSUM=ff08fecd44e6e9bccc41bdd6f147952e +BUILDCHAIN=custom + +package_specific_build () { + cp -r ${UNPACK_PATH}/${EXTRACTSTO}/usr/* ${INSTALL_PATH} +} + +package_specific_register () { + export MTL4_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/numpy.package b/FEniCS/packages/numpy.package new file mode 100644 index 0000000..04cf657 --- /dev/null +++ b/FEniCS/packages/numpy.package @@ -0,0 +1,33 @@ +NAME=numpy-1.6.2 +SOURCE=http://downloads.sourceforge.net/numpy/ +PACKING=.tar.gz +BUILDCHAIN=python + +package_specific_setup () { + if [ ! -z "${ATLAS_LIB_DIR}" ]; then + echo " +[DEFAULT] +library_dirs = ${ATLAS_LIB_DIR} +include_dirs = ${ATLAS_DIR}/include + +[blas_opt] +libraries = f77blas, cblas, atlas + +[lapack_opt] +libraries = lapack, f77blas, cblas, atlas +" > site.cfg + + elif [ ! -z "${LAPACKANDBLAS_DIR}" ]; then + echo " +[atlas] +library_dirs = ${LAPACKANDBLAS_DIR} +atlas_libs = lapack, blas +" > site.cfg + fi + + python setup.py build --fcompiler=gnu95 +} + +package_specific_register () { + ln -sf ${INSTALL_PATH}/lib/python${PYTHONVER}/site-packages/numpy/core/include/numpy ${INSTALL_PATH}/include/python${PYTHONVER} +} diff --git a/FEniCS/packages/numpy_intel.package b/FEniCS/packages/numpy_intel.package new file mode 100644 index 0000000..965daf7 --- /dev/null +++ b/FEniCS/packages/numpy_intel.package @@ -0,0 +1,20 @@ +NAME=numpy-1.6.1 +SOURCE=http://downloads.sourceforge.net/numpy/ +PACKING=.tar.gz +BUILDCHAIN=custom + +MKLLIB=/soft/intel/mkl/10.3.6.233/composer_xe_2011_sp1.6.233/mkl/lib/intel64 +MKLINCLUDE=/soft/intel/mkl/10.3.6.233/composer_xe_2011_sp1.6.233/mkl/include + +package_specific_build () { + echo "[mkl]" > site.cfg + echo "library_dirs = ${MKLLIB}" >> site.cfg + echo "include_dirs = ${MKLINCLUDE}" >> site.cfg + echo "mkl_libs = mkl_intel,mkl_intel_thread,mkl_core,mkl_rt" >> site.cfg + python setup.py config --compiler=intelem build_clib --compiler=intelem build_ext --compiler=intelem install --prefix=${INSTALL_PATH} +} + +package_specific_register () { + ln -sf ${INSTALL_PATH}/lib/python${PYTHONVER}/site-packages/numpy/core/include/numpy ${INSTALL_PATH}/include/python${PYTHONVER} +} + diff --git a/FEniCS/packages/openmpi.package b/FEniCS/packages/openmpi.package new file mode 100644 index 0000000..829ee26 --- /dev/null +++ b/FEniCS/packages/openmpi.package @@ -0,0 +1,12 @@ +NAME=openmpi-1.6.2 +SOURCE=http://www.open-mpi.org/software/ompi/v1.6/downloads/ +PACKING=.tar.bz2 +BUILDCHAIN=autotools + +CONFOPTS="--enable-mpi-thread-multiple + --enable-opal-multi-threads + --with-threads=posix + --disable-mpi-profile" + +# FIXME: This must be used on OS X: +#CONFOPTS="${CONFOPTS} --disable-mpi-f90" diff --git a/FEniCS/packages/parmetis.package b/FEniCS/packages/parmetis.package new file mode 100644 index 0000000..498f141 --- /dev/null +++ b/FEniCS/packages/parmetis.package @@ -0,0 +1,21 @@ +NAME=parmetis-4.0.2 +SOURCE=http://glaros.dtc.umn.edu/gkhome/fetch/sw/parmetis/ +PACKING=.tar.gz +CHECKSUM=0912a953da5bb9b5e5e10542298ffdce +BUILDCHAIN=custom + +package_specific_build() { + cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . + cd metis + make config prefix=${INSTALL_PATH} shared=1 + make -j ${PROCS} + make install + cd .. + make config prefix=${INSTALL_PATH} shared=1 + make -j ${PROCS} + make install +} + +package_specific_register () { + export PARMETIS_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/pastix.package b/FEniCS/packages/pastix.package new file mode 100644 index 0000000..8596d27 --- /dev/null +++ b/FEniCS/packages/pastix.package @@ -0,0 +1,275 @@ +NAME=pastix_release_4030 +SOURCE=https://gforge.inria.fr/frs/download.php/32044/ +PACKING=.tar.bz2 +BUILDCHAIN=custom + +package_specific_build () { + if [ -z ${PASTIX_ARCH} ]; then + PASTIX_ARCH="i686_pc_linux" + fi + VERSIONBIT="_64bit" + VERSIONINT="_int64" + CCTYPES="-DFORCE_INT64 -DINTSSIZE64" + + # FIXME: Use the following on 32-bit architectures: + #VERSIONBIT="_32bit" + #VERSIONINT="_int32" + #CCTYPES="-DFORCE_INT32 -DINTSSIZE32" + + if [ "${ATLAS_LIB_DIR}" ]; then + BLAS_HOME="${ATLAS_LIB_DIR}" + BLASLIB="-L${ATLAS_LIB_DIR} -lcblas -lf77blas -latlas" + elif [ "${BLAS_DIR}" ]; then + BLAS_HOME="${BLAS_DIR}" + BLASLIB="-L${BLAS_DIR} -lblas" + else + BLAS_HOME="/path/to/blas" + BLASLIB="-lblas" + fi + + # Create config file + cd src + cat > config.in << EOF +HOSTARCH = ${PASTIX_ARCH} +VERSIONBIT = ${VERSIONBIT} +EXEEXT = +OBJEXT = .o +LIBEXT = .a +CCPROG = gcc -Wall +CFPROG = gfortran +CF90PROG = gfortran -ffree-form +MCFPROG = mpif90 +CF90CCPOPT = -ffree-form -x f95-cpp-input +# Compilation options for optimization (make expor) +CCFOPT = -O3 +# Compilation options for debug (make | make debug) +CCFDEB = -g3 + +LKFOPT = +MKPROG = make +MPCCPROG = mpicc -Wall +CPP = cpp +ARFLAGS = ruv +ARPROG = ar +EXTRALIB = -lgfortran -lm -lrt + +VERSIONMPI = _mpi +VERSIONSMP = _smp +VERSIONSCH = _static +VERSIONINT = _int +VERSIONPRC = _simple +VERSIONFLT = _real +VERSIONORD = _scotch + +################################################################### +# SETTING INSTALL DIRECTORIES # +################################################################### +ROOT = ${INSTALL_PATH} +INCLUDEDIR = \${ROOT}/include +LIBDIR = \${ROOT}/lib +BINDIR = \${ROOT}/bin + +################################################################### +# SHARED LIBRARY GENERATION # +################################################################### +SHARED=1 +SHARED_FLAGS = -shared -Wl,-soname,__SO_NAME__ +CCFDEB := \${CCFDEB} -fPIC +CCFOPT := \${CCFOPT} -fPIC +CFPROG := \${CFPROG} -fPIC + +################################################################### +# INTEGER TYPE # +################################################################### +# Uncomment the following lines for integer type support (Only 1) + +#VERSIONINT = _long +#CCTYPES = -DFORCE_LONG -DLONG +#--------------------------- +#VERSIONINT = _int32 +#CCTYPES = -DFORCE_INT32 -DINTSIZE32 +#--------------------------- +#VERSIONINT = _int64 +#CCTYPES = -DFORCE_INT64 -DINTSSIZE64 +#--------------------------- +VERSIONINT = ${VERSIONINT} +CCTYPES = ${CCTYPES} + +################################################################### +# FLOAT TYPE # +################################################################### +CCTYPESFLT = +# Uncomment the following lines for double precision support +VERSIONPRC = _double +CCTYPESFLT := \$(CCTYPESFLT) -DFORCE_DOUBLE -DPREC_DOUBLE + +# Uncomment the following lines for float=complex support +#VERSIONFLT = _complex +#CCTYPESFLT := \$(CCTYPESFLT) -DFORCE_COMPLEX -DTYPE_COMPLEX + + +################################################################### +# MPI/THREADS # +################################################################### + +# Uncomment the following lines for sequential (NOMPI) version +#VERSIONMPI = _nompi +#CCTYPES := \$(CCTYPES) -DFORCE_NOMPI +#MPCCPROG = \$(CCPROG) +#MCFPROG = \$(CFPROG) + +# Uncomment the following lines for non-threaded (NOSMP) version +#VERSIONSMP = _nosmp +#CCTYPES := \$(CCTYPES) -DFORCE_NOSMP + +# Uncomment the following line to enable a progression thread +#CCPASTIX := \$(CCPASTIX) -DTHREAD_COMM + +# Uncomment the following line if your MPI doesn't support MPI_THREAD_MULTIPLE level +#CCPASTIX := \$(CCPASTIX) -DPASTIX_FUNNELED + +# Uncomment the following line if your MPI doesn't support MPI_Datatype correctly +#CCPASTIX := \$(CCPASTIX) -DNO_MPI_TYPE + +# Uncomment the following line if you want to use semaphore barrier +# instead of MPI barrier (with IPARM_AUTOSPLIT_COMM) +#CCPASTIX := \$(CCPASTIX) -DWITH_SEM_BARRIER + +# Uncomment the following lines to enable StarPU. +#CCPASTIX := \${CCPASTIX} \`pkg-config libstarpu --cflags\` -DWITH_STARPU +#EXTRALIB := \$(EXTRALIB) \`pkg-config libstarpu --libs\` + +# Uncomment the following line to enable StarPU profiling +# ( IPARM_VERBOSE > API_VERBOSE_NO ). +#CCPASTIX := \${CCPASTIX} -DSTARPU_PROFILING + +# Uncomment the following line to disable CUDA (StarPU) +#CCPASTIX := \${CCPASTIX} -DFORCE_NO_CUDA + +################################################################### +# Options # +################################################################### + +# Show memory usage statistics +#CCPASTIX := \$(CCPASTIX) -DMEMORY_USAGE + +# Show memory usage statistics in solver +#CCPASTIX := \$(CCPASTIX) -DSTATS_SOPALIN + +# Uncomment following line for dynamic thread scheduling support +#CCPASTIX := \$(CCPASTIX) -DPASTIX_DYNSCHED + +# Uncomment the following lines for Out-of-core +#CCPASTIX := \$(CCPASTIX) -DOOC -DOOC_NOCOEFINIT -DOOC_DETECT_DEADLOCKS + +################################################################### +# GRAPH PARTITIONING # +################################################################### + +# Uncomment the following lines for using metis ordering +#VERSIONORD = _metis +#METIS_HOME = \${HOME}/metis-4.0 +#CCPASTIX := \$(CCPASTIX) -DMETIS -I\$(METIS_HOME)/Lib +#EXTRALIB := \$(EXTRALIB) -L\$(METIS_HOME) -lmetis + +# Scotch always needed to compile +SCOTCH_HOME ?= ${SCOTCH_DIR} +SCOTCH_INC ?= \$(SCOTCH_HOME)/include +SCOTCH_LIB ?= \$(SCOTCH_HOME)/lib +# Uncomment on of this blocks +#scotch +#CCPASTIX := \$(CCPASTIX) -I\$(SCOTCH_INC) -DWITH_SCOTCH +#EXTRALIB := \$(EXTRALIB) -L\$(SCOTCH_LIB) -lscotch -lscotcherrexit +#ptscotch +CCPASTIX := \$(CCPASTIX) -I\$(SCOTCH_INC) -DDISTRIBUTED -DWITH_SCOTCH +EXTRALIB := \$(EXTRALIB) -L\$(SCOTCH_LIB) -lptscotch -lscotcherrexit + +################################################################### +# Portable Hardware Locality # +################################################################### +# If HwLoc library is available, Uncomment the following lines to bind correctly threads on cpus +#HWLOC_HOME ?= /opt/hwloc/ +#HWLOC_INC ?= \$(HWLOC_HOME)/include +#HWLOC_LIB ?= \$(HWLOC_HOME)/lib +#CCPASTIX := \$(CCPASTIX) -I\$(HWLOC_INC) -DWITH_HWLOC +#EXTRALIB := \$(EXTRALIB) -L\$(HWLOC_LIB) -lhwloc + +################################################################### +# MARCEL # +################################################################### + +# Uncomment following lines for marcel thread support +#VERSIONSMP := \$(VERSIONSMP)_marcel +#CCPASTIX := \$(CCPASTIX) \`pm2-config --cflags\` -I\${PM2_ROOT}/marcel/include/pthread +#EXTRALIB := \$(EXTRALIB) \`pm2-config --libs\` +# ---- Thread Posix ------ +EXTRALIB := \$(EXTRALIB) -lpthread + +# Uncomment following line for bubblesched framework support (need marcel support) +#VERSIONSCH = _dyn +#CCPASTIX := \$(CCPASTIX) -DPASTIX_BUBBLESCHED + +################################################################### +# BLAS # +################################################################### + +# Choose Blas library (Only 1) +# Do not forget to set BLAS_HOME if it is not in your environnement +BLAS_HOME = ${BLAS_HOME} +BLASLIB = ${BLASLIB} +#---- Blas ---- +#BLASLIB = -lblas +#---- Gotoblas ---- +#BLASLIB = -L\${BLAS_HOME} -lgoto +#---- MKL ---- +#Uncomment the correct line +#BLASLIB = -L\$(BLAS_HOME) -lmkl_intel_lp64 -lmkl_sequential -lmkl_core +#BLASLIB = -L\$(BLAS_HOME) -lmkl_intel -lmkl_sequential -lmkl_core +#---- Acml ---- +#BLASLIB = -L\$(BLAS_HOME) -lacml + +################################################################### +# PYTHON WRAPPER # +################################################################### +#MPI4PY_DIR = /path/to//mpi4py +#MPI4PY_INC = \$(MPI4PY_DIR)/src/include/ +#MPI4PY_LIBDIR = \$(MPI4PY_DIR)/build/lib.linux-x86_64-2.7/ +#PYTHON_INC = /usr/include/python2.7/ +#CCTYPES := \$(CCTYPES) -fPIC + +################################################################### +# DO NOT TOUCH # +################################################################### + +FOPT := \$(CCFOPT) +FDEB := \$(CCFDEB) +CCHEAD := \$(CCPROG) \$(CCTYPES) \$(CCFOPT) +CCFOPT := \$(CCFOPT) \$(CCTYPES) \$(CCPASTIX) +CCFDEB := \$(CCFDEB) \$(CCTYPES) \$(CCPASTIX) + + +################################################################### +# MURGE COMPATIBILITY # +################################################################### +# Uncomment if you need MURGE interface to be thread safe +# CCPASTIX := \$(CCPASTIX) -DMURGE_THREADSAFE + +MAKE = \$(MKPROG) +CC = \$(MPCCPROG) +CFLAGS = \$(CCFOPT) \$(CCTYPESFLT) +FC = \$(MCFPROG) +FFLAGS = \$(CCFOPT) +LDFLAGS = \$(EXTRALIB) \$(BLASLIB) +EOF + + # Build and install + make -j ${PROCS} + make install + + # Workaround for bug in 4030 release + sed -i 's/u_int64_t/uint64_t/g' ${INSTALL_PATH}/include/pastix.h +} + +package_specific_register () { + export PASTIX_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/pcre.package b/FEniCS/packages/pcre.package new file mode 100644 index 0000000..ad7dac4 --- /dev/null +++ b/FEniCS/packages/pcre.package @@ -0,0 +1,6 @@ +NAME=pcre-8.21 +SOURCE=http://downloads.sourceforge.net/pcre/ +PACKING=.tar.gz +CHECKSUM=b8c9469717262a1e486cffc288b28283 +BUILDCHAIN=autotools + diff --git a/FEniCS/packages/petsc.package b/FEniCS/packages/petsc.package new file mode 100644 index 0000000..b44c4c9 --- /dev/null +++ b/FEniCS/packages/petsc.package @@ -0,0 +1,37 @@ +NAME=petsc-3.4.2 +SOURCE=http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/ +PACKING=.tar.gz +CHECKSUM=449e27f3c9a37d0bd9d7941cc79a09a9 +BUILDCHAIN=custom + +CONFOPTS="COPTFLAGS=-O2 + --with-debugging=0 --with-shared-libraries=1 + --with-clanguage=cxx --with-c-support=1" + +for external_pkg in umfpack hypre mumps scalapack blacs ptscotch scotch metis parmetis ${PETSC_EXTRA_PACKAGES}; do + CONFOPTS="${CONFOPTS} --download-${external_pkg}=1" +done + +if [ "${TRILINOS_DIR}" ]; then + CONFOPTS="${CONFOPTS} --with-ml=1 + --with-ml-lib=${TRILINOS_DIR}/lib/libml.so + --with-ml-include=${TRILINOS_DIR}/include" +fi + +if [ "${CUDA_DIR}" ] && [ "${CUSP_DIR}" ]; then + CONFOPTS="${CONFOPTS} --with-cuda=1 --with-cuda-dir=${CUDA_DIR} + --with-cusp=1 --with-cusp-dir=${CUSP_DIR} + --with-thrust=1 --with-thrust-dir=${CUDA_DIR}/include" +fi + +package_specific_build () { + cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . + ./configure --prefix=${INSTALL_PATH} ${CONFOPTS} + make PETSC_DIR=${PWD} PETSC_ARCH=${PETSC_ARCH} all + make PETSC_DIR=${PWD} PETSC_ARCH=${PETSC_ARCH} install +} + +package_specific_register () { + export PETSC_DIR=${INSTALL_PATH} + unset PETSC_ARCH +} diff --git a/FEniCS/packages/pkg-config.package b/FEniCS/packages/pkg-config.package new file mode 100644 index 0000000..b61b6b0 --- /dev/null +++ b/FEniCS/packages/pkg-config.package @@ -0,0 +1,4 @@ +NAME=pkg-config-0.28 +SOURCE=http://pkgconfig.freedesktop.org/releases/ +PACKING=.tar.gz +BUILDCHAIN=autotools diff --git a/FEniCS/packages/ply.package b/FEniCS/packages/ply.package new file mode 100644 index 0000000..f19f156 --- /dev/null +++ b/FEniCS/packages/ply.package @@ -0,0 +1,5 @@ +VERSION=3.4 +NAME=ply-${VERSION} +SOURCE=http://www.dabeaz.com/ply/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/python.package b/FEniCS/packages/python.package new file mode 100644 index 0000000..fb4f254 --- /dev/null +++ b/FEniCS/packages/python.package @@ -0,0 +1,18 @@ +VERSION=2.7.2 +NAME=Python-${VERSION} +SOURCE=http://www.python.org/ftp/python/${VERSION}/ +PACKING=.tar.bz2 +BUILDCHAIN=autotools +CONFOPTS="--enable-shared" + +package_specific_setup() { + patch -p1 --forward < ${ORIG_DIR}/FEniCS/patches/python.patch || true +} + +package_specific_register() { + export PYTHON_DIR=${INSTALL_PATH} + export PYTHON_EXECUTABLE=${PYTHON_DIR}/bin/python + export PYTHON_INCLUDE_DIR=${PYTHON_DIR}/include/python2.7 + # FIXME: should be .dylib on OS X + export PYTHON_LIBRARY=${PYTHON_DIR}/lib/libpython2.7.so +} diff --git a/FEniCS/packages/scientificpython.package b/FEniCS/packages/scientificpython.package new file mode 100644 index 0000000..f9eb004 --- /dev/null +++ b/FEniCS/packages/scientificpython.package @@ -0,0 +1,9 @@ +NAME=ScientificPython-2.8 +SOURCE=http://sourcesup.cru.fr/frs/download.php/2309/ +PACKING=.tar.gz +CHECKSUM=82d8592635d6ae8608b3073dacf9e694 +BUILDCHAIN=python + +package_specific_setup () { + patch -p --forward < ${ORIG_DIR}/FEniCS/patches/scientificpython.patch || true +} diff --git a/FEniCS/packages/scipy.package b/FEniCS/packages/scipy.package new file mode 100644 index 0000000..f837bd9 --- /dev/null +++ b/FEniCS/packages/scipy.package @@ -0,0 +1,34 @@ +NAME=scipy-0.12.0 +SOURCE=http://downloads.sourceforge.net/scipy/ +PACKING=.tar.gz +BUILDCHAIN=python + +package_specific_setup () { + if [ ! -z "${ATLAS_LIB_DIR}" ]; then + echo " +[blas_opt] +library_dirs = ${ATLAS_LIB_DIR} +include_dirs = ${ATLAS_DIR}/include +libraries = f77blas, cblas, atlas + +[lapack_opt] +library_dirs = ${ATLAS_LIB_DIR} +include_dirs = ${ATLAS_DIR}/include +libraries = lapack, f77blas, cblas, atlas +" >> site.cfg + fi + + if [ ! -z "${UMFPACK_DIR}" ]; then + echo " +[amd] +library_dirs = ${UMFPACK_DIR}/lib +include_dirs = ${UMFPACK_DIR}/include/suitesparse +amd_libs = amd + +[umfpack] +library_dirs = ${UMFPACK_DIR}/lib +include_dirs = ${UMFPACK_DIR}/include/suitesparse +umfpack_libs = umfpack +" >> site.cfg + fi +} diff --git a/FEniCS/packages/scons.package b/FEniCS/packages/scons.package new file mode 100644 index 0000000..2e2a2eb --- /dev/null +++ b/FEniCS/packages/scons.package @@ -0,0 +1,6 @@ +NAME=scons-2.0.1 +SOURCE=http://downloads.sourceforge.net/scons/ +PACKING=.tar.gz +CHECKSUM=beca648b894cdbf85383fffc79516d18 +BUILDCHAIN=python + diff --git a/FEniCS/packages/scotch.package b/FEniCS/packages/scotch.package new file mode 100644 index 0000000..0f0dbeb --- /dev/null +++ b/FEniCS/packages/scotch.package @@ -0,0 +1,37 @@ +NAME=scotch_6.0.0_esmumps +SOURCE=http://fenicsproject.org/pub/software/contrib/ +PACKING=.tar.gz +CHECKSUM=c50d6187462ba801f9a82133ee666e8e +BUILDCHAIN=autotools +EXTRACTSTO=scotch_6.0.0_esmumps/src +PROCS=1 +TARGETS=('' 'ptscotch' 'ptesmumps') + +package_specific_setup () { + cd ${UNPACK_PATH}/${EXTRACTSTO} + if [ ${SCOTCH_ARCH} == "pc_linux2" ] + then + SCOTCH_ARCH=$(echo $ARCH|sed 's/_/-/g')_${SCOTCH_ARCH} + fi + perl -pi -e 's/^CFLAGS\t\t=/CFLAGS = -fPIC/g' Make.inc/Makefile.inc.${SCOTCH_ARCH} + perl -pi -e 's/^CCS.*= gcc/CCS = mpicc/g' Make.inc/Makefile.inc.${SCOTCH_ARCH} + perl -pi -e 's/^CCD.*= gcc/CCD = mpicc/g' Make.inc/Makefile.inc.${SCOTCH_ARCH} + if [ ${SCOTCH_ARCH} == "i686_mac_darwin8" ] + then + # Darwin does not have a pthread_barrier_t implementation + perl -pi -e 's/-DSCOTCH_PTHREAD/-DCOMMON_PTHREAD_BARRIER/g' Make.inc/Makefile.inc.${SCOTCH_ARCH} + else + perl -pi -e 's/-DSCOTCH_PTHREAD//g' Make.inc/Makefile.inc.${SCOTCH_ARCH} + fi + ln -sf Make.inc/Makefile.inc.${SCOTCH_ARCH} Makefile.inc +} + +package_specific_install () { + make ptesmumps install -j ${PROCS} prefix=${INSTALL_PATH} + cp -f ../lib/*scotc*[^m].a ${INSTALL_PATH}/lib + cp -f ../lib/*esmumps.a ${INSTALL_PATH}/lib +} + +package_specific_register () { + export SCOTCH_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/setuptools.package b/FEniCS/packages/setuptools.package new file mode 100644 index 0000000..9e3df47 --- /dev/null +++ b/FEniCS/packages/setuptools.package @@ -0,0 +1,5 @@ +VERSION=1.4.1 +NAME=setuptools-${VERSION} +SOURCE=https://pypi.python.org/packages/source/s/setuptools/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/slepc.package b/FEniCS/packages/slepc.package new file mode 100644 index 0000000..1bb716a --- /dev/null +++ b/FEniCS/packages/slepc.package @@ -0,0 +1,21 @@ +NAME=slepc-3.4.2 +SOURCE=http://www.fenicsproject.org/pub/software/contrib/ +PACKING=.tar.gz +CHECKSUM=78ff6a709f50ccd765fa61589400d5f3 +BUILDCHAIN=custom + +package_specific_setup () { + cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . + patch -p1 --forward < ${ORIG_DIR}/FEniCS/patches/slepc.patch || true + export SLEPC_DIR=${PWD} +} + +package_specific_build () { + SLEPC_DIR=${PWD} ./configure --prefix=${INSTALL_PATH} + make PETSC_ARCH=arch-installed-petsc all + make PETSC_ARCH=arch-installed-petsc install +} + +package_specific_register () { + export SLEPC_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/sqlite.package b/FEniCS/packages/sqlite.package new file mode 100644 index 0000000..7e321ab --- /dev/null +++ b/FEniCS/packages/sqlite.package @@ -0,0 +1,11 @@ +VERSION=3070800 +NAME=sqlite-autoconf-${VERSION} +SOURCE=http://www.sqlite.org/ +PACKING=.tar.gz +BUILDCHAIN=custom + +package_specific_build () { + ./configure --prefix=${INSTALL_PATH} + make -j ${PROCS} + make install +} diff --git a/FEniCS/packages/suitesparse.package b/FEniCS/packages/suitesparse.package new file mode 100644 index 0000000..bbf3315 --- /dev/null +++ b/FEniCS/packages/suitesparse.package @@ -0,0 +1,54 @@ +NAME=SuiteSparse-4.0.2 +SOURCE=http://www.cise.ufl.edu/research/sparse/SuiteSparse/ +PACKING=.tar.gz +BUILDCHAIN=custom +EXTRACTSTO=SuiteSparse + +package_specific_build () { + mkdir -p ${INSTALL_PATH}/include/suitesparse + cat > SuiteSparse_config/SuiteSparse_config.mk << EOF +#CF = \$(CFLAGS) \$(CPPFLAGS) \$(TARGET_ARCH) -O3 -fexceptions -fPIC +CF = \$(CFLAGS) \$(CPPFLAGS) \$(TARGET_ARCH) -O3 -fexceptions -fPIC -DNTIMER +RANLIB = ranlib +ARCHIVE = \$(AR) \$(ARFLAGS) +CP = cp -f +MV = mv -f +F77 = gfortran +F77FLAGS = \$(FFLAGS) -O +F77LIB = +#LIB = -lm -lrt +LIB = -lm +INSTALL_LIB = ${INSTALL_PATH}/lib +INSTALL_INCLUDE = ${INSTALL_PATH}/include/suitesparse +XERBLA = +GPU_BLAS_PATH = +GPU_CONFIG = +UMFPACK_CONFIG = +CHOLMOD_CONFIG = \$(GPU_CONFIG) -DNPARTITION +SPQR_CONFIG = +TBB = +CLEAN = *.o *.obj *.ln *.bb *.bbg *.da *.tcov *.gcov gmon.out *.bak *.d *.gcda *.gcno +EOF + + if [ ! -z "${ATLAS_LIB_DIR}" ]; then + cat >> SuiteSparse_config/SuiteSparse_config.mk << EOF +BLAS = -L${ATLAS_LIB_DIR} -lcblas -lf77blas -latlas +LAPACK = -L${ATLAS_LIB_DIR} -llapack +EOF + else + cat >> SuiteSparse_config/SuiteSparse_config.mk << EOF +BLAS = -lblas -lgfortran +LAPACK = -llapack +EOF + fi + + make +} + +package_specific_install () { + make install +} + +package_specific_register () { + export UMFPACK_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/suitesparsewithmetis.package b/FEniCS/packages/suitesparsewithmetis.package new file mode 100644 index 0000000..48aa4b1 --- /dev/null +++ b/FEniCS/packages/suitesparsewithmetis.package @@ -0,0 +1,31 @@ +NAME=SuiteSparse +SOURCE=http://www.cise.ufl.edu/research/sparse/SuiteSparse/current/ +PACKING=.tar.gz +BUILDCHAIN=custom + +package_specific_build () { + perl -pi -e 's/^CFLAGS = -O/CFLAGS = -fPIC -O/g' UFconfig/UFconfig.mk + perl -pi -e 's/-lgfortran.*n//g' UFconfig/UFconfig.mk + perl -pi -e 's/-lg2c//g' UFconfig/UFconfig.mk + if [ ! -e metis-4.0.3.tar.gz ] + then + wget http://glaros.dtc.umn.edu/gkhome/fetch/sw/metis/metis-4.0.3.tar.gz + fi + tar -xzf metis-4.0.3.tar.gz + ln -sf metis-4.0.3 metis-4.0 + cd metis-4.0 + perl -pi -e 's/COPTIONS =/COPTIONS = -fPIC/g' Makefile.in + make + cd .. + make +} + +package_specific_install () { + mkdir -p ${INSTALL_PATH}/include/suitesparse + ln -sf `find ${PWD} -name '*.h' | grep -vi demo | xargs` ${INSTALL_PATH}/include/suitesparse + ln -sf `find ${PWD} -name 'lib*.a' | xargs` ${INSTALL_PATH}/lib +} + +package_specific_register () { + export UMFPACK_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/suitesparsewithmetis_OpenMPI.package b/FEniCS/packages/suitesparsewithmetis_OpenMPI.package new file mode 100644 index 0000000..b60dbaa --- /dev/null +++ b/FEniCS/packages/suitesparsewithmetis_OpenMPI.package @@ -0,0 +1,45 @@ +VERSION=3.4.0 +NAME=SuiteSparse-${VERSION} +SOURCE=http://www.cise.ufl.edu/research/sparse/SuiteSparse/ +PACKING=.tar.gz +BUILDCHAIN=custom +EXTRACTSTO=SuiteSparse + +package_specific_build () { + sed -i 's/CFLAGS = -O/CFLAGS = -fPIC -O/g' UFconfig/UFconfig.mk + sed -i 's/CC = cc/CC = mpicc/g' UFconfig/UFconfig.mk + sed -i 's/CPLUSPLUS = g++/CPLUSPLUS = mpiCC/g' UFconfig/UFconfig.mk + sed -i 's/F77 = f77/F77 = mpif90/g' UFconfig/UFconfig.mk + sed -i 's/-lg2c//g' UFconfig/UFconfig.mk + sed -i 's,-lblas,-L${INSTALL_PATH}/lib/ -lblas,g' UFconfig/UFconfig.mk + sed -i 's,begin,,g' UFconfig/UFconfig.mk + sed -i 's,-llapack,-L${INSTALL_PATH}/lib/ -llapack,g' UFconfig/UFconfig.mk + sed -i 's,XERBLA =,# XERBLA =,g' UFconfig/UFconfig.mk + sed -i 's,# # XERBLA = ../../UFconfig/xerbla/libxerbla.a, XERBLA = ../../UFconfig/xerbla/libxerbla.a,' UFconfig/UFconfig.mk + sed -i 's,-fexceptions, -fexceptions,g' UFconfig/UFconfig.mk + + if [ ! -e metis-4.0.3.tar.gz ] + then + wget http://glaros.dtc.umn.edu/gkhome/fetch/sw/metis/metis-4.0.3.tar.gz + fi + tar -xzf metis-4.0.3.tar.gz + ln -sf metis-4.0.3 metis-4.0 + cd metis-4.0 + perl -pi -e 's/COPTIONS =/COPTIONS = -fPIC/g' Makefile + make -j + cd .. + cd UFconfig/xerbla/ + make all + cd ../../ + make +} + +package_specific_install () { + mkdir -p ${INSTALL_PATH}/include/suitesparse + ln -sf `find ${PWD} -name '*.h' | grep -vi demo | xargs` ${INSTALL_PATH}/include/suitesparse + ln -sf `find ${PWD} -name 'lib*.a' | xargs` ${INSTALL_PATH}/lib +} + +package_specific_register () { + export UMFPACK_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/swig.package b/FEniCS/packages/swig.package new file mode 100644 index 0000000..395e48a --- /dev/null +++ b/FEniCS/packages/swig.package @@ -0,0 +1,26 @@ +NAME=swig-2.0.3 +SOURCE=http://downloads.sourceforge.net/swig/ +PACKING=.tar.gz +CHECKSUM=e548ea3882b994c4907d6be86bef90f2 +BUILDCHAIN=autotools + +package_specific_setup () { + if [ ! -z ${SWIG_CC} ]; then + export TMP_SWIG_CC=${CC} + export CC=${SWIG_CC} + fi + if [ ! -z ${SWIG_CXX} ]; then + export TMP_SWIG_CXX=${CXX} + export CXX=${SWIG_CXX} + fi +} + +package_specific_register () { + if [ ! -z ${TMP_SWIG_CC} ]; then + export CC=${TMP_SWIG_CC} + fi + if [ ! -z ${TMP_SWIG_CXX} ]; then + export CXX=${TMP_SWIG_CXX} + fi + export SWIG_EXECUTABLE=${INSTALL_PATH}/bin/swig +} diff --git a/FEniCS/packages/swiginac.package b/FEniCS/packages/swiginac.package new file mode 100644 index 0000000..542eb06 --- /dev/null +++ b/FEniCS/packages/swiginac.package @@ -0,0 +1,8 @@ +NAME=swiginac-1.5.1.1 +SOURCE=http://download.berlios.de/swiginac/ +PACKING=.tgz +BUILDCHAIN=python + +package_specific_setup () { +python setup.py build +} diff --git a/FEniCS/packages/syfi-snapshot.package b/FEniCS/packages/syfi-snapshot.package new file mode 100644 index 0000000..cdbb81e --- /dev/null +++ b/FEniCS/packages/syfi-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=syfi-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/syfi/ +PACKING=.tar.gz diff --git a/FEniCS/packages/syfi-stable.package b/FEniCS/packages/syfi-stable.package new file mode 100644 index 0000000..7ad8409 --- /dev/null +++ b/FEniCS/packages/syfi-stable.package @@ -0,0 +1,4 @@ +VERSION=1.0.0 +NAME=syfi-${VERSION} +SOURCE=http://launchpad.net/fenics-syfi/1.0.x/${VERSION}/+download/ +PACKING=.tar.gz diff --git a/FEniCS/packages/syfi.package b/FEniCS/packages/syfi.package new file mode 100644 index 0000000..2d683eb --- /dev/null +++ b/FEniCS/packages/syfi.package @@ -0,0 +1,8 @@ +NAME=fenics-syfi +SOURCE=lp: +PACKING=bzr +BUILDCHAIN=cmake + +if [ -x "${SWIG_EXECUTABLE}" ]; then + CONFOPTS="-D SWIG_EXECUTABLE:FILEPATH=${SWIG_EXECUTABLE}" +fi diff --git a/FEniCS/packages/sympy.package b/FEniCS/packages/sympy.package new file mode 100644 index 0000000..6f69395 --- /dev/null +++ b/FEniCS/packages/sympy.package @@ -0,0 +1,4 @@ +NAME=sympy-0.7.1 +SOURCE=http://pypi.python.org/packages/source/s/sympy/ +PACKING=.tar.gz +BUILDCHAIN=python diff --git a/FEniCS/packages/template.package b/FEniCS/packages/template.package new file mode 100644 index 0000000..61a4ae9 --- /dev/null +++ b/FEniCS/packages/template.package @@ -0,0 +1,28 @@ +NAME=foo-x.y.z +SOURCE=http://foo.org/downloads/foo/ +PACKING=[.tar.gz|.tar.bz2|.tbz2|.tgz|.zip|hg|svn|git|bzr] +BUILDCHAIN=[autotools|python|scons|cmake|custom] +EXTRACTSTO=barnotfoo +CONFOPTS="" +SCONSOPTS="" +TARGETS=('' install) + +package_specific_setup () { + # Any non-standard configuration and pre-build instructions go + # here. +} + +package_specific_build () { + # Any custom build instructions go here. This function is only + # used if the 'custom' buildchain is defined. +} + +package_specific_install () { + # Any non-standard installation and post-build instructions go + # here. +} + +package_specific_register () { + # Any environment variables defined by this package that are + # required by other packages go here. +} diff --git a/FEniCS/packages/trilinos.package b/FEniCS/packages/trilinos.package new file mode 100644 index 0000000..43bab49 --- /dev/null +++ b/FEniCS/packages/trilinos.package @@ -0,0 +1,80 @@ +VERSION=11.8.1 +NAME=trilinos-${VERSION}-Source +SOURCE=http://trilinos.sandia.gov/download/files/ +PACKING=.tar.gz +CHECKSUM=3c9465b6d63d824e9dc0365ca73c3370 +BUILDCHAIN=custom + +package_specific_setup () { +echo "Build ${NAME}" + +CONFOPTS="-D Trilinos_ENABLE_OpenMP:BOOL=OFF \ + -D TPL_ENABLE_TBB:BOOL=OFF \ + -D Trilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=ON \ + -D Trilinos_ENABLE_Epetra:BOOL=ON \ + -D Trilinos_ENABLE_ML:BOOL=ON \ + -D Trilinos_ENABLE_PyTrilinos:BOOL=ON \ + -D Trilinos_ENABLE_TESTS:BOOL=OFF \ + -D Trilinos_ENABLE_EXAMPLES:BOOL=OFF \ + -D Trilinos_ENABLE_Didasko:BOOL=ON \ + -D Trilinos_ENABLE_Sacado:BOOL=ON \ + -D Trilinos_ENABLE_Stratimikos:BOOL=ON \ + -D CMAKE_BUILD_TYPE:STRING=RELEASE \ + -D CMAKE_VERBOSE_MAKEFILE:BOOL=FALSE \ + -D Trilinos_VERBOSE_CONFIGURE:BOOL=FALSE \ + -D TPL_ENABLE_MPI:BOOL=ON \ + -D TPL_ENABLE_UMFPACK:BOOL=ON \ + -D CMAKE_INSTALL_PREFIX:PATH=${INSTALL_PATH} \ + -D BUILD_SHARED_LIBS:BOOL=ON" + +GFORTRAN_EXECUTABLE=$(which gfortran) +if [ ! -z "${GFORTRAN_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} + -D Trilinos_ENABLE_Fortran:BOOL=ON + -D CMAKE_Fortran_COMPILER:FILEPATH=mpif90" +else + CONFOPTS="${CONFOPTS} -D Trilinos_ENABLE_Fortran:BOOL=OFF" +fi + +if [ ! -z "${ATLAS_LIB_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -D BLAS_LIBRARY_NAMES=\"cblas;f77blas;atlas\" + -D BLAS_LIBRARY_DIRS=${ATLAS_LIB_DIR} + -D LAPACK_LIBRARY_DIRS=${ATLAS_LIB_DIR}" +fi + +if [ ! -z "${UMFPACK_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -D UMFPACK_INCLUDE_DIRS=${UMFPACK_DIR}/include/suitesparse + -D UMFPACK_LIBRARY_DIRS=${UMFPACK_DIR}/lib + -D UMFPACK_LIBRARY_NAMES=\"umfpack;cholmod;camd;ccolamd;colamd;amd;suitesparseconfig\"" +elif [ ! -z "${UMFPACK_INCLUDE_DIR}" ]; then + CONFOPTS="${CONFOPTS} -D UMFPACK_INCLUDE_DIRS=${UMFPACK_INCLUDE_DIR}" +fi + +if [ -x "${SWIG_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D SWIG_EXECUTABLE:FILEPATH=${SWIG_EXECUTABLE}" +fi + +if [ ! -z "${PYTHON_INCLUDE_DIR}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_INCLUDE_DIR:PATH=${PYTHON_INCLUDE_DIR}" +fi + +if [ ! -z "${PYTHON_LIBRARY}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_LIBRARY:PATH=${PYTHON_LIBRARY}" +fi + + +TRILINOS_SOURCE="${UNPACK_PATH}/${EXTRACTSTO}" + +# configure +cmake ${CONFOPTS} ${TRILINOS_SOURCE} + +# make +make -j${PROCS} +make install +} + +package_specific_register () { + export TRILINOS_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/trilinos_intel.package b/FEniCS/packages/trilinos_intel.package new file mode 100644 index 0000000..22aae22 --- /dev/null +++ b/FEniCS/packages/trilinos_intel.package @@ -0,0 +1,36 @@ +NAME=trilinos-10.10.2-Source +SOURCE=http://trilinos.sandia.gov/download/files/ +PACKING=.tar.gz +BUILDCHAIN=cmake + +MKLINCLUDE="/soft/intel/mkl/10.3.6.233/composer_xe_2011_sp1.6.233/mkl/include" +COMPILERFLAGS="'-fPIC -DMPICH_IGNORE_CXX_SEEK -m64 -DMKL_ILP64 -lpthread'" +MKLLIBS="\"-lmkl_rt\"" + +CONFOPTS="-D CMAKE_CXX_COMPILER:FILEPATH='mpicxx' + -D CMAKE_C_COMPILER:FILEPATH='mpicc' + -D Trilinos_INSTALL_INCLUDE_DIR:PATH=include/trilinos + -D Trilinos_ENABLE_ALL_OPTIONAL_PACKAGES:BOOL=ON + -D Trilinos_ENABLE_PyTrilinos:BOOL=ON + -D Trilinos_ENABLE_Fortran:BOOL=OFF + -D Trilinos_ENABLE_TESTS:BOOL=ON + -D Trilinos_ENABLE_EXAMPLES:BOOL=OFF + -D CMAKE_BUILD_TYPE:STRING=Release + -D BUILD_SHARED_LIBS:BOOL=ON + -D TPL_ENABLE_MPI:BOOL=ON + -D CMAKE_CXX_FLAGS:STRING=${COMPILERFLAGS} + -D CMAKE_C_FLAGS:STRING=${COMPILERFLAGS} + -D CMAKE_SKIP_BUILD_RPATH:BOOL=ON + -D CMAKE_BUILD_WITH_INSTALL_RPATH:BOOL=OFF + -D BLAS_INCLUDE_DIRS:PATH=${MKLINCLUDE} + -D LAPCK_INCLUDE_DIRS:PATH=${MKLINCLUDE} + -D TPL_BLAS_LIBRARIES:STRING=${MKLLIBS} + -D TPL_LAPACK_LIBRARIES:STRING=${MKLLIBS}" + +if [ -x "${SWIG_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D SWIG_EXECUTABLE:FILEPATH=${SWIG_EXECUTABLE}" +fi + +package_specific_register () { + export TRILINOS_DIR=${INSTALL_PATH} +} diff --git a/FEniCS/packages/ufc-snapshot.package b/FEniCS/packages/ufc-snapshot.package new file mode 100644 index 0000000..676efe4 --- /dev/null +++ b/FEniCS/packages/ufc-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=ufc-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/ufc/ +PACKING=.tar.gz diff --git a/FEniCS/packages/ufc-stable.package b/FEniCS/packages/ufc-stable.package new file mode 100644 index 0000000..a8ae9c0 --- /dev/null +++ b/FEniCS/packages/ufc-stable.package @@ -0,0 +1,6 @@ +VERSION=2.3.0 +NAME=ufc-${VERSION} +SOURCE=https://bitbucket.org/fenics-project/ufc-deprecated/downloads/ +PACKING=.tar.gz +CHECKSUM=11ee6ff8b7b44705932c6ebc6ae265d3 +BUILDCHAIN=cmake diff --git a/FEniCS/packages/ufc.package b/FEniCS/packages/ufc.package new file mode 100644 index 0000000..8a04e2f --- /dev/null +++ b/FEniCS/packages/ufc.package @@ -0,0 +1,20 @@ +NAME=ufc-deprecated +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=nothing + +if [ -x "${SWIG_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D SWIG_EXECUTABLE:FILEPATH=${SWIG_EXECUTABLE}" +fi + +if [ ! -z "${PYTHON_EXECUTABLE}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_EXECUTABLE:FILEPATH=${PYTHON_EXECUTABLE}" +fi + +if [ ! -z "${PYTHON_INCLUDE_DIR}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_INCLUDE_DIR:PATH=${PYTHON_INCLUDE_DIR}" +fi + +if [ ! -z "${PYTHON_LIBRARY}" ]; then + CONFOPTS="${CONFOPTS} -D PYTHON_LIBRARY:PATH=${PYTHON_LIBRARY}" +fi diff --git a/FEniCS/packages/ufl-snapshot.package b/FEniCS/packages/ufl-snapshot.package new file mode 100644 index 0000000..9778e0c --- /dev/null +++ b/FEniCS/packages/ufl-snapshot.package @@ -0,0 +1,4 @@ +VERSION=snapshot +NAME=ufl-${VERSION} +SOURCE=http://fenicsproject.org/pub/software/ufl/ +PACKING=.tar.gz diff --git a/FEniCS/packages/ufl-stable.package b/FEniCS/packages/ufl-stable.package new file mode 100644 index 0000000..7ba629e --- /dev/null +++ b/FEniCS/packages/ufl-stable.package @@ -0,0 +1,5 @@ +VERSION=1.3.0 +NAME=ufl-${VERSION} +SOURCE=https://bitbucket.org/fenics-project/ufl/downloads/ +PACKING=.tar.gz +CHECKSUM=c57de98161c10bbbc0339ef2d1a4749d diff --git a/FEniCS/packages/ufl.package b/FEniCS/packages/ufl.package new file mode 100644 index 0000000..d75bb9a --- /dev/null +++ b/FEniCS/packages/ufl.package @@ -0,0 +1,4 @@ +NAME=ufl +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=python diff --git a/FEniCS/packages/uflacs.package b/FEniCS/packages/uflacs.package new file mode 100644 index 0000000..6792e6a --- /dev/null +++ b/FEniCS/packages/uflacs.package @@ -0,0 +1,4 @@ +NAME=uflacs +SOURCE=https://bitbucket.org/fenics-project/ +PACKING=git +BUILDCHAIN=python diff --git a/FEniCS/packages/viper-stable.package b/FEniCS/packages/viper-stable.package new file mode 100644 index 0000000..4631ba1 --- /dev/null +++ b/FEniCS/packages/viper-stable.package @@ -0,0 +1,5 @@ +VERSION=1.0.0 +NAME=viper-${VERSION} +SOURCE=http://launchpad.net/fenics-viper/1.0.x/${VERSION}/+download/ +PACKING=.tar.gz +CHECKSUM=4aa7d37934c98e637b45eb9cc7d03cdd diff --git a/FEniCS/packages/viper.package b/FEniCS/packages/viper.package new file mode 100644 index 0000000..beceebf --- /dev/null +++ b/FEniCS/packages/viper.package @@ -0,0 +1,4 @@ +NAME=fenics-viper +SOURCE=lp: +PACKING=bzr +BUILDCHAIN=python diff --git a/FEniCS/packages/vtk.package b/FEniCS/packages/vtk.package new file mode 100644 index 0000000..c4c16da --- /dev/null +++ b/FEniCS/packages/vtk.package @@ -0,0 +1,26 @@ +NAME=vtk-5.10.1 +SOURCE=http://www.vtk.org/files/release/5.10/ +PACKING=.tar.gz +BUILDCHAIN=cmake +EXTRACTSTO=VTK5.10.1 + +CONFOPTS="-D CMAKE_BUILD_TYPE:STRING=Release + -D BUILD_TESTING:BOOL=OFF + -D BUILD_SHARED_LIBS:BOOL=ON + -D VTK_WRAP_PYTHON:BOOL=ON + -D VTK_USE_TK:BOOL=ON + -D VTK_USE_GL2PS:BOOL=ON + -D VTK_USE_QT:BOOL=ON" + +if [ -d "${VTK_DATA_ROOT}" ]; then + CONFOPTS="${CONFOPTS} -D VTK_DATA_ROOT:PATH=${VTK_DATA_ROOT}" +fi + +package_specific_setup () { +# chmod 600 Utilities/vtktiff/tif_fax3sm.c +} + +package_specific_register () { + export LD_LIBRARY_PATH=${INSTALL_PATH}/lib/vtk-5.8:${LD_LIBRARY_PATH} + export DYLD_LIBRARY_PATH=${INSTALL_PATH}/lib/vtk-5.8:${DYLD_LIBRARY_PATH} +} diff --git a/FEniCS/packages/vtkdata.package b/FEniCS/packages/vtkdata.package new file mode 100644 index 0000000..80e74a4 --- /dev/null +++ b/FEniCS/packages/vtkdata.package @@ -0,0 +1,9 @@ +NAME=vtkdata-5.10.1 +SOURCE=http://www.vtk.org/files/release/5.10/ +PACKING=.tar.gz +BUILDCHAIN=custom +EXTRACTSTO=VTKData5.10.1 + +package_specific_register () { + export VTK_DATA_ROOT=${PWD} +} diff --git a/FEniCS/packages/vtkwithqt.package b/FEniCS/packages/vtkwithqt.package new file mode 100644 index 0000000..7bcf02b --- /dev/null +++ b/FEniCS/packages/vtkwithqt.package @@ -0,0 +1,26 @@ +NAME=vtk-5.10.1 +SOURCE=http://www.vtk.org/files/release/5.10/ +PACKING=.tar.gz +BUILDCHAIN=cmake +EXTRACTSTO=VTK5.10.1 + +CONFOPTS="-D CMAKE_BUILD_TYPE:STRING=Release + -D BUILD_TESTING:BOOL=OFF + -D BUILD_SHARED_LIBS:BOOL=ON + -D VTK_WRAP_PYTHON:BOOL=ON + -D VTK_USE_TK:BOOL=ON + -D VTK_USE_GL2PS:BOOL=ON + -D VTK_USE_QT=ON" + +if [ -d "${VTK_DATA_ROOT}" ]; then + CONFOPTS="${CONFOPTS} -D VTK_DATA_ROOT:PATH=${VTK_DATA_ROOT}" +fi + +package_specific_setup () { +# chmod 600 Utilities/vtktiff/tif_fax3sm.c +} + +package_specific_register () { + export LD_LIBRARY_PATH=${INSTALL_PATH}/lib/vtk-5.8:${LD_LIBRARY_PATH} + export DYLD_LIBRARY_PATH=${INSTALL_PATH}/lib/vtk-5.8:${DYLD_LIBRARY_PATH} +} diff --git a/FEniCS/packages/zlib.package b/FEniCS/packages/zlib.package new file mode 100644 index 0000000..1c7207a --- /dev/null +++ b/FEniCS/packages/zlib.package @@ -0,0 +1,4 @@ +NAME=zlib-1.2.7 +SOURCE=http://zlib.net/ +PACKING=.tar.gz +BUILDCHAIN=autotools diff --git a/FEniCS/patches/armadillo_no_mkl.patch b/FEniCS/patches/armadillo_no_mkl.patch new file mode 100644 index 0000000..d243c82 --- /dev/null +++ b/FEniCS/patches/armadillo_no_mkl.patch @@ -0,0 +1,16 @@ +Hack to prevent Armadillo from picking up MKL when we want to build with ATLAS. +--- armadillo-3.2.3.orig/CMakeLists.txt 2012-12-13 11:18:32.399393689 +0100 ++++ armadillo-3.2.3/CMakeLists.txt 2012-12-13 11:18:43.595393294 +0100 +@@ -72,9 +72,9 @@ + else() + set(ARMA_OS unix) + +- include(ARMA_FindMKL) +- include(ARMA_FindACMLMP) +- include(ARMA_FindACML) ++ #include(ARMA_FindMKL) ++ #include(ARMA_FindACMLMP) ++ #include(ARMA_FindACML) + + message(STATUS "MKL_FOUND = ${MKL_FOUND}") + message(STATUS "ACMLMP_FOUND = ${ACMLMP_FOUND}") diff --git a/FEniCS/patches/cgal.patch b/FEniCS/patches/cgal.patch new file mode 100644 index 0000000..15b41ed --- /dev/null +++ b/FEniCS/patches/cgal.patch @@ -0,0 +1,11 @@ +--- src/CGAL/KDS_Log.cpp~ 2009-07-24 13:41:31.000000000 +0100 ++++ src/CGAL/KDS_Log.cpp 2010-01-20 17:38:15.000000000 +0000 +@@ -23,7 +23,7 @@ + #include + #include + CGAL_BEGIN_NAMESPACE +-Log::State Log::state_; ++// Log::State Log::state_; + CGAL_END_NAMESPACE + CGAL_KINETIC_BEGIN_INTERNAL_NAMESPACE + diff --git a/FEniCS/patches/dolfin-armadillo-test.patch b/FEniCS/patches/dolfin-armadillo-test.patch new file mode 100644 index 0000000..a3993e8 --- /dev/null +++ b/FEniCS/patches/dolfin-armadillo-test.patch @@ -0,0 +1,17 @@ +diff -Nru dolfin-1.0-beta.orig/cmake/modules/FindArmadillo.cmake dolfin-1.0-beta/cmake/modules/FindArmadillo.cmake +--- dolfin-1.0-beta.orig/cmake/modules/FindArmadillo.cmake 2011-09-23 11:17:38.459186000 -0500 ++++ dolfin-1.0-beta/cmake/modules/FindArmadillo.cmake 2011-09-23 11:20:56.447560000 -0500 +@@ -173,6 +173,13 @@ + endif() + endif() + ++# Armadillo test is not working, but this does not seem to be a problem, ++# so ignore a failed test ++if (NOT ARMADILLO_TEST_RUNS) ++ MESSAGE( "Warning: Armadillo test run failed. Ignoring." ) ++ set(ARMADILLO_TEST_RUNS TRUE) ++endif() ++ + # Standard package handling + include(FindPackageHandleStandardArgs) + find_package_handle_standard_args(Armadillo \ No newline at end of file diff --git a/FEniCS/patches/madlib.patch b/FEniCS/patches/madlib.patch new file mode 100644 index 0000000..c512a2e --- /dev/null +++ b/FEniCS/patches/madlib.patch @@ -0,0 +1,46 @@ +diff -Nru madlib-1.3.0.orig/Benchmarks/moveIt/Parameters.h madlib-1.3.0/Benchmarks/moveIt/Parameters.h +--- madlib-1.3.0.orig/Benchmarks/moveIt/Parameters.h 2010-11-12 15:00:57.000000000 +0100 ++++ madlib-1.3.0/Benchmarks/moveIt/Parameters.h 2010-11-12 15:00:57.000000000 +0100 +@@ -18,6 +18,7 @@ + #include "SizeFieldBase.h" + #include "LocalSizeField.h" + ++#include + #include + using std::string; + #include +diff -Nru madlib-1.3.0.orig/configure madlib-1.3.0/configure +--- madlib-1.3.0.orig/configure 2010-11-12 15:00:57.000000000 +0100 ++++ madlib-1.3.0/configure 2010-11-17 15:58:05.000000000 +0100 +@@ -18697,7 +18697,7 @@ + + + includedir="${prefix}/include/MAdLib" +-allincludedir="${prefix}/include_all/MAdLib" ++allincludedir="${prefix}/include/MAdLib" + + + +diff -Nru madlib-1.3.0.orig/configure.ac madlib-1.3.0/configure.ac +--- madlib-1.3.0.orig/configure.ac 2010-11-12 15:00:57.000000000 +0100 ++++ madlib-1.3.0/configure.ac 2010-11-17 15:58:14.000000000 +0100 +@@ -724,7 +724,7 @@ + AC_CONFIG_MACRO_DIR([m4]) + + includedir="${prefix}/include/MAdLib" +-allincludedir="${prefix}/include_all/MAdLib" ++allincludedir="${prefix}/include/MAdLib" + + dnl Write output + AC_SUBST(UNAME) +diff -Nru madlib-1.3.0.orig/Mesh/MshTags.h madlib-1.3.0/Mesh/MshTags.h +--- madlib-1.3.0.orig/Mesh/MshTags.h 2010-11-12 15:00:57.000000000 +0100 ++++ madlib-1.3.0/Mesh/MshTags.h 2010-11-12 15:00:57.000000000 +0100 +@@ -14,6 +14,7 @@ + #ifndef MSHTAGS__H + #define MSHTAGS__H + ++#include + #include + #include + diff --git a/FEniCS/patches/petsc.patch b/FEniCS/patches/petsc.patch new file mode 100644 index 0000000..2f403eb --- /dev/null +++ b/FEniCS/patches/petsc.patch @@ -0,0 +1,56 @@ +diff -Nru petsc-3.2-p6.orig/src/mat/impls/aij//mpi/mpicusp/mpiaijAssemble.cu petsc-3.2-p6/src/mat/impls/aij//mpi/mpicusp/mpiaijAssemble.cu +--- petsc-3.2-p6.orig/src/mat/impls/aij//mpi/mpicusp/mpiaijAssemble.cu 2012-02-09 14:29:16.530465405 +0100 ++++ petsc-3.2-p6/src/mat/impls/aij//mpi/mpicusp/mpiaijAssemble.cu 2012-02-09 14:51:53.720465807 +0100 +@@ -15,7 +15,7 @@ + #include + #include + #include +-#include ++//#include + + #include + +@@ -430,7 +430,8 @@ + // the Cusp one is 2x faster, but still not optimal + // This could possibly be done in-place + ierr = PetscInfo(J, "Compressing matrices\n");CHKERRQ(ierr); +- cusp::detail::device::reduce_by_key ++ //cusp::detail::device::reduce_by_key ++ thrust::reduce_by_key + (thrust::make_zip_iterator(thrust::make_tuple(diagCOO.row_indices.begin(), diagCOO.column_indices.begin())) + diagonalOffset, + thrust::make_zip_iterator(thrust::make_tuple(diagCOO.row_indices.end(), diagCOO.column_indices.end())), + diagCOO.values.begin() + diagonalOffset, +@@ -438,7 +439,8 @@ + A.values.begin(), + thrust::equal_to< thrust::tuple >(), + thrust::plus()); +- cusp::detail::device::reduce_by_key ++ //cusp::detail::device::reduce_by_key ++ thrust::reduce_by_key + (thrust::make_zip_iterator(thrust::make_tuple(offdiagCOO.row_indices.begin(), offdiagCOO.column_indices.begin())) + offdiagonalOffset, + thrust::make_zip_iterator(thrust::make_tuple(offdiagCOO.row_indices.end(), offdiagCOO.column_indices.end())), + offdiagCOO.values.begin() + offdiagonalOffset, +diff -Nru petsc-3.2-p6.orig/src/mat/impls/aij//seq/seqcusp/aijAssemble.cu petsc-3.2-p6/src/mat/impls/aij//seq/seqcusp/aijAssemble.cu +--- petsc-3.2-p6.orig/src/mat/impls/aij//seq/seqcusp/aijAssemble.cu 2012-02-09 14:30:01.830465419 +0100 ++++ petsc-3.2-p6/src/mat/impls/aij//seq/seqcusp/aijAssemble.cu 2012-02-09 14:51:55.470465809 +0100 +@@ -14,7 +14,7 @@ + #include + #include + #include +-#include ++//#include + + #include + +@@ -258,9 +258,10 @@ + // sum values with the same (i,j) index + // XXX thrust::reduce_by_key is unoptimized right now, so we provide a SpMV-based one in cusp::detail + // the Cusp one is 2x faster, but still not optimal ++ // FEniCS patch: reduce_by_key is removed in Cusp 0.3, so we use the Thrust version to ensure compatiblity + // This could possibly be done in-place + ierr = PetscInfo(J, "Compressing matrix\n");CHKERRQ(ierr); +-#if 1 ++#if 0 + cusp::detail::device::reduce_by_key + (thrust::make_zip_iterator(thrust::make_tuple(COO.row_indices.begin(), COO.column_indices.begin())), + thrust::make_zip_iterator(thrust::make_tuple(COO.row_indices.end(), COO.column_indices.end())), diff --git a/FEniCS/patches/python.patch b/FEniCS/patches/python.patch new file mode 100644 index 0000000..42c5195 --- /dev/null +++ b/FEniCS/patches/python.patch @@ -0,0 +1,21 @@ +diff -Nru Python-2.7.2.orig/Makefile.pre.in Python-2.7.2/Makefile.pre.in +--- Python-2.7.2.orig/Makefile.pre.in 2013-04-08 12:39:28.000000000 +0200 ++++ Python-2.7.2/Makefile.pre.in 2013-04-08 12:40:25.000000000 +0200 +@@ -426,7 +426,7 @@ + libpython$(VERSION).so: $(LIBRARY_OBJS) + if test $(INSTSONAME) != $(LDLIBRARY); then \ + $(BLDSHARED) -Wl,-h$(INSTSONAME) -o $(INSTSONAME) $(LIBRARY_OBJS) $(MODLIBS) $(SHLIBS) $(LIBC) $(LIBM) $(LDLAST); \ +- $(LN) -f $(INSTSONAME) $@; \ ++ $(LN) -fs $(INSTSONAME) $@; \ + else \ + $(BLDSHARED) -o $@ $(LIBRARY_OBJS) $(MODLIBS) $(SHLIBS) $(LIBC) $(LIBM) $(LDLAST); \ + fi +@@ -792,7 +792,7 @@ + then rm -f $(DESTDIR)$(BINDIR)/$(PYTHON); \ + else true; \ + fi +- (cd $(DESTDIR)$(BINDIR); $(LN) python$(VERSION)$(EXE) $(PYTHON)) ++ (cd $(DESTDIR)$(BINDIR); $(LN) -s python$(VERSION)$(EXE) $(PYTHON)) + -rm -f $(DESTDIR)$(BINDIR)/python-config + (cd $(DESTDIR)$(BINDIR); $(LN) -s python$(VERSION)-config python-config) + -test -d $(DESTDIR)$(LIBPC) || $(INSTALL) -d -m $(DIRMODE) $(DESTDIR)$(LIBPC) diff --git a/FEniCS/patches/scientificpython.patch b/FEniCS/patches/scientificpython.patch new file mode 100644 index 0000000..b3ad83d --- /dev/null +++ b/FEniCS/patches/scientificpython.patch @@ -0,0 +1,28 @@ +diff -Nru ScientificPython-2.8.orig/setup.py ScientificPython-2.8/setup.py +--- ScientificPython-2.8.orig/setup.py 2008-10-28 14:31:44.000000000 +0100 ++++ ScientificPython-2.8/setup.py 2010-08-20 09:29:16.000000000 +0200 +@@ -40,13 +40,17 @@ + extra_compile_args.append("-DNUMARRAY=1") + else : + extra_compile_args.append("-DNUMPY=1") +- if sys.platform == 'win32': +- arrayobject_h_include = [os.path.join(sys.prefix, +- "Lib/site-packages/numpy/core/include")] +- else: +- arrayobject_h_include = [os.path.join(sys.prefix, +- "lib/python%s.%s/site-packages/numpy/core/include" +- % sys.version_info [:2])] ++ try: ++ import numpy ++ arrayobject_h_include = [numpy.get_include()] ++ except ImportError: ++ if sys.platform == 'win32': ++ arrayobject_h_include = [os.path.join(sys.prefix, ++ "Lib/site-packages/numpy/core/include")] ++ else: ++ arrayobject_h_include = [os.path.join(sys.prefix, ++ "lib/python%s.%s/site-packages/numpy/core/include" ++ % sys.version_info [:2])] + + math_libraries = [] + if sys.platform != 'win32': diff --git a/FEniCS/patches/slepc.patch b/FEniCS/patches/slepc.patch new file mode 100644 index 0000000..963209f --- /dev/null +++ b/FEniCS/patches/slepc.patch @@ -0,0 +1,14 @@ +diff -Nru slepc-3.4.1.orig/config/configure.py slepc-3.4.1/config/configure.py +--- slepc-3.4.1.orig/config/configure.py 2013-08-14 10:14:04.157596562 +0200 ++++ slepc-3.4.1/config/configure.py 2013-08-14 10:14:37.341561962 +0200 +@@ -297,8 +297,8 @@ + pkgconfig = open(os.sep.join([pkgconfigdir,'SLEPc.pc']),'w') + except: + sys.exit('ERROR: cannot create pkgconfig file in ' + pkgconfigdir) +-if prefixinstall and os.path.isfile(os.sep.join([prefixdir,'include','slepc.h'])): +- sys.exit('ERROR: prefix directory ' + prefixdir + ' contains files from a previous installation') ++#if prefixinstall and os.path.isfile(os.sep.join([prefixdir,'include','slepc.h'])): ++# sys.exit('ERROR: prefix directory ' + prefixdir + ' contains files from a previous installation') + + # Create temporary directory and makefile for running tests + try: diff --git a/FEniCS/patches/trilinos.patch b/FEniCS/patches/trilinos.patch new file mode 100644 index 0000000..1c4b827 --- /dev/null +++ b/FEniCS/patches/trilinos.patch @@ -0,0 +1,36 @@ +diff -Nru trilinos-11.0.3-Source.orig/cmake/TPLs/FindTPLUMFPACK.cmake trilinos-11.0.3-Source/cmake/TPLs/FindTPLUMFPACK.cmake +--- trilinos-11.0.3-Source.orig/cmake/TPLs/FindTPLUMFPACK.cmake 2012-11-21 10:00:57.966984315 +0100 ++++ trilinos-11.0.3-Source/cmake/TPLs/FindTPLUMFPACK.cmake 2012-11-21 10:08:21.946968616 +0100 +@@ -55,7 +55,14 @@ + + INCLUDE(TribitsTplDeclareLibraries) + +-TRIBITS_TPL_DECLARE_LIBRARIES( UMFPACK +- REQUIRED_HEADERS umfpack.h amd.h UFconfig.h +- REQUIRED_LIBS_NAMES umfpack amd +- ) ++IF (APPLE) ++ TRIBITS_TPL_DECLARE_LIBRARIES( UMFPACK ++ REQUIRED_HEADERS umfpack.h amd.h UFconfig.h ++ REQUIRED_LIBS_NAMES umfpack amd SuiteSparse ++ ) ++ELSE() ++ TRIBITS_TPL_DECLARE_LIBRARIES( UMFPACK ++ REQUIRED_HEADERS umfpack.h amd.h UFconfig.h ++ REQUIRED_LIBS_NAMES umfpack amd ++ ) ++ENDIF() +diff -Nru trilinos-11.0.3-Source.orig/packages/PyTrilinos/src/CMakeLists.txt trilinos-11.0.3-Source/packages/PyTrilinos/src/CMakeLists.txt +--- trilinos-11.0.3-Source.orig/packages/PyTrilinos/src/CMakeLists.txt 2012-11-21 10:00:58.226984311 +0100 ++++ trilinos-11.0.3-Source/packages/PyTrilinos/src/CMakeLists.txt 2012-11-21 10:09:24.498966402 +0100 +@@ -195,6 +195,10 @@ + PROPERTIES LINK_FLAGS "${EXTRA_LINK_ARGS}" + ) + ++if (APPLE) ++ TARGET_LINK_LIBRARIES(pytrilinos ${PYTHON_LIBRARIES}) ++endif() ++ + # + # Define the PyTrilinos swig setup + SET(CMAKE_SWIG_FLAGS "") diff --git a/FEniCS/platforms/.single b/FEniCS/platforms/.single new file mode 100644 index 0000000..e69de29 diff --git a/FEniCS/platforms/supported/fedora19.platform b/FEniCS/platforms/supported/fedora19.platform new file mode 100644 index 0000000..18fe032 --- /dev/null +++ b/FEniCS/platforms/supported/fedora19.platform @@ -0,0 +1,62 @@ +# Fedora 19 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y redhat-lsb bzr bzrtools subversion \ +# libxml2-devel gcc gcc-c++ openmpi-devel openmpi numpy swig wget \ +# atlas-devel suitesparse-devel blas-devel \ +# lapack-devel cln-devel ginac-devel python-devel cmake \ +# ScientificPython mpfr-devel armadillo-devel gmp-devel CGAL-devel \ +# cppunit-devel flex bison bzip2-devel python-ply eigen3 scotch scotch-devel \ +# vtk vtkdata vtk-devel vtk-python tk tk-devel tcl tcl-devel \ +# sphinx python-sphinx python-numpydoc' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. For this, on a 32-bit operating +# system, run: +# +# module load openmpi-i386 +# +# or on a 64-bit operating system, run: +# +# module load openmpi-x86_64 +# +# After Dorsal has completed, please make sure the following +# environment variable is set before running any Python DOLFIN +# programs: +# +# export BOOST_DIR=${INSTALL_PATH} +# +# Also, if you are using SELinux, you may need to disable it to run +# DOLFIN programs. +## + +# Platform specific variables +default PETSC_ARCH=linux-gnu-cxx-opt +default SCOTCH_ARCH=pc_linux2 +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +skip:FEniCS-prepare +once:hdf5 +once:boost +once:parmetis +once:trilinos +once:petsc +once:slepc +once:vtkwithqt +# swiginac +# once:scotch +fiat +ferari +ufc +ufl +ffc +# syfi +viper +instant +dolfin +skip:FEniCS +) diff --git a/FEniCS/platforms/supported/fedora20.platform b/FEniCS/platforms/supported/fedora20.platform new file mode 100644 index 0000000..89562c4 --- /dev/null +++ b/FEniCS/platforms/supported/fedora20.platform @@ -0,0 +1,62 @@ +# Fedora 20 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y redhat-lsb bzr bzrtools subversion \ +# libxml2-devel gcc gcc-c++ openmpi-devel openmpi numpy swig wget \ +# atlas-devel suitesparse-devel blas-devel \ +# lapack-devel cln-devel ginac-devel python-devel cmake \ +# ScientificPython mpfr-devel armadillo-devel gmp-devel CGAL-devel \ +# cppunit-devel flex bison bzip2-devel python-ply eigen3 scotch scotch-devel \ +# vtk vtkdata vtk-devel vtk-python tk tk-devel tcl tcl-devel \ +# sphinx python-sphinx python-numpydoc' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. For this, on a 32-bit operating +# system, run: +# +# module load openmpi-i386 +# +# or on a 64-bit operating system, run: +# +# module load openmpi-x86_64 +# +# After Dorsal has completed, please make sure the following +# environment variable is set before running any Python DOLFIN +# programs: +# +# export BOOST_DIR=${INSTALL_PATH} +# +# Also, if you are using SELinux, you may need to disable it to run +# DOLFIN programs. +## + +# Platform specific variables +default PETSC_ARCH=linux-gnu-cxx-opt +default SCOTCH_ARCH=pc_linux2 +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +skip:FEniCS-prepare +#once:hdf5 +once:boost +once:parmetis +once:trilinos +once:petsc +once:slepc +#once:sphinx +# swiginac +# once:scotch +fiat +ferari +ufc +ufl +ffc +# syfi +viper +instant +dolfin +skip:FEniCS +) diff --git a/FEniCS/platforms/supported/rhel6.platform b/FEniCS/platforms/supported/rhel6.platform new file mode 100644 index 0000000..5ae711e --- /dev/null +++ b/FEniCS/platforms/supported/rhel6.platform @@ -0,0 +1,66 @@ +# RHEL 6 + +# This build script assumes that you have several packages already +# installed via RHEL's yum using the following command: +# +# su -c 'yum install -y redhat-lsb bzr bzrtools subversion \ +# libxml2-devel gcc gcc-c++ openmpi-devel openmpi numpy swig wget \ +# vtk-python atlas-devel suitesparse-devel blas-devel \ +# lapack-devel cln-devel ginac-devel python-devel cmake \ +# ScientificPython mpfr-devel armadillo-devel gmp-devel CGAL-devel \ +# cppunit-devel flex bison bzip2-devel python-ply eigen3 scotch scotch-devel' +# +# If you have multiple MPI libraries installed, make sure the +# appropriate version is selected. For this, on a 32-bit operating +# system, run: +# +# module load openmpi-i386 +# +# or on a 64-bit operating system, run: +# +# module load openmpi-x86_64 +# +# After Dorsal has completed, please make sure the following +# environment variable is set before running any Python DOLFIN +# programs: +# +# export BOOST_DIR=${INSTALL_PATH} +# +# Also, if you are using SELinux, you may need to disable it to run +# DOLFIN programs. +## + +# Platform specific variables +default PETSC_ARCH=linux-gnu-cxx-opt +default SCOTCH_ARCH=pc_linux2 +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +skip:FEniCS-prepare +once:boost +once:pcre +once:scientificpython +once:cgal +once:bazaar +once:scons +once:mtl +once:hdf5 +once:parmetis +once:swig +once:trilinos +once:petsc +once:slepc +once:armadillo +once:scotch +fiat +ferari +ufc +ufl +ffc +# syfi +viper +instant +dolfin +skip:FEniCS +) diff --git a/FEniCS/platforms/supported/ubuntu13.platform b/FEniCS/platforms/supported/ubuntu13.platform new file mode 100644 index 0000000..ad24035 --- /dev/null +++ b/FEniCS/platforms/supported/ubuntu13.platform @@ -0,0 +1,40 @@ +# Ubuntu 13.10 (Saucy Salamander) + +# This build script assumes that you have several packages already +# installed via Ubuntu's apt-get using the following commands: +# +# sudo apt-get install bzr bzrtools cmake flex g++ gfortran \ +# libarmadillo-dev libatlas-base-dev libboost-dev \ +# libboost-{filesystem,iostreams,mpi,program-options,thread,math,timer,chrono}-dev \ +# libcln-dev libcppunit-dev libginac-dev \ +# liblapack-dev libmpfr-dev libopenmpi-dev libptscotch-dev \ +# libsuitesparse-dev libxml2-dev openmpi-bin pkg-config \ +# python-dev python-numpy python-scientific python-vtk subversion swig \ +# wget bison libhwloc-dev python-ply libvtk5-dev python-netcdf \ +# libhdf5-openmpi-dev libeigen3-dev +# +# Also, if you have multiple MPI libraries installed, make sure +# "sudo update-alternatives --config mpi" is set to openmpi. +## + +# Platform specific variables +default PETSC_ARCH=linux-gnu-cxx-opt +default UMFPACK_INCLUDE_DIR=/usr/include/suitesparse + +# Define the packages this platform needs +PACKAGES=( +skip:FEniCS-prepare +cgal +parmetis +trilinos +petsc +slepc +fiat +#ferari +ufc +ufl +ffc +instant +dolfin +skip:FEniCS +) diff --git a/README.md.dorsal b/README.md.dorsal new file mode 100644 index 0000000..79ff7dc --- /dev/null +++ b/README.md.dorsal @@ -0,0 +1,56 @@ +Copyright (C) 2007 -- 2013 +Harish Narayanan () + +Licensing information follows a little later in this file. + +# Dorsal + +This directory tree holds Dorsal, a set of simple scripts to build +components of the FEniCS Project (as well as their dependencies) for +various platforms. Currently, Dorsal supports the following +environments: + +* Fedora 13, 14, 15 +* Ubuntu 12.04 LTS, 12.10, 13.04 +* openSUSE 11.3, 11.4, 12.1 +* Red Hat Enterprise Linux 6 +* Debian GNU/Linux 6.0, Unstable +* Mac OS X 10.6, 10.7 (with MacPorts) + +If your favourite platform is not on the list above, let us know about +it, and we can work together toward adding it. + +Please refer to the file USAGE for details on compiling and installing +the FEniCS Project with the help of Dorsal. USAGE demonstrates how +Dorsal comes in handy under common usage scenarios. The file also +provides a brief overview of the underlying structure of Dorsal, so +you may want to go through it if you are interested in extending +Dorsal to suit your needs. + +If you run into any problems, ensure that you've installed all the +preliminary dependencies for your platform (usually from the system +package manager) that Dorsal assumes you already have. An incomplete +list of this is provided in the .platform file for each platform, +along with platform-specific tips. In most cases, these should solve +your problem. If you're having further difficulty, please go through +the file USAGE for detailed usage and troubleshooting instructions, or +see http://fenicsproject.org/support for contact information. + +Dorsal is collaboratively developed free software. The file AUTHORS +contains a complete list of authors and contributors to the project, +and its evolution is catalogued in the file ChangeLog. You are free to +redistribute Dorsal and/or modify it under the terms of the GNU Lesser +General Public License as published by the Free Software Foundation; +either version 3, or (at your option) any later version. If you are +interested in contributing to the project, please take a look at the +file TODO for some ideas. + +This software is distributed in the hope that it will be useful, but +WITHOUT ANY WARRANTY; without even the implied warranty of +MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the GNU +Lesser General Public License for more details. + +You should have received a copy of the GNU Lesser General Public +License along with this software; see the file COPYING.lesser. If not, +write to the Free Software Foundation, 59 Temple Place - Suite 330, +Boston, MA 02111-1307, USA. diff --git a/TODO b/TODO new file mode 100644 index 0000000..e2e752d --- /dev/null +++ b/TODO @@ -0,0 +1,26 @@ +* Introduce automatic dependency resolution. + Difficulty: High Urgency: Low + +* Test Dorsal on supported platforms and correct the package lists if + necessary. Feel free to contribute information for other platforms + as well. + Difficulty: Low Urgency: High + +* Add (MD5/SHA1) check summing mechanism to the downloading routine + (and corresponding hashes to the package files) to verify if + downloaded files are sane. + Difficulty: Moderate Urgency: Moderate + +* Sniff out 32/64 bit-ness of machines automatically to suitably set + GMP_ARCH, SCOTCH_ARCH etc. + Difficulty: Moderate Urgency: High + +* Insert download links somewhere in the documentation. + Difficulty: Trivial Urgency: Moderate + +* Introduce mechanism to update package lists. + Difficulty: Moderate Urgency: Low + +* Add the ability to "clean" a build. This could be as simple as + cleaning the dorsal_build folder, or something more complex. + Difficulty: Moderate Urgency: Low diff --git a/USAGE b/USAGE new file mode 100644 index 0000000..0d5f9df --- /dev/null +++ b/USAGE @@ -0,0 +1,309 @@ +Using, troubleshooting and extending Dorsal + + This document contains instructions for compiling and installing the + FEniCS Project with the help of Dorsal. It contains the following + sections, which catalogue common use cases, provide information on + troubleshooting common problems, and present a brief look at the + design of Dorsal, should you want to extend it. + + Basic usage + Repeated builds + Coexisting stable and development builds + Mixed stable and development builds + Troubleshooting and getting help + Elements of Dorsal's design + + + Basic usage + + The simplest scenario is setting up everything for the first time on + a supported platform. In order to do this, you: + + 1. First tweak dorsal.cfg to your liking. This file lets you + specify some key information to Dorsal, including where you'd + like to download and install the FEniCS Project components, and + whether you'd like to install stable releases or (potentially + unstable) development versions of projects. + + 2. Invoke the build script by running: + + ./dorsal.sh + + 3. At this point, Dorsal attempts to guess your operating + environment (platform) and provides a list of instructions to + ensure your system is ready for installing FEniCS. Go through + these carefully, and copy and paste appropriate commands into + another terminal window to prepare your system. + + If Dorsal fails to recognise your platform, or you want to + specify a known platform you are interested in (myplatform), + invoke Dorsal via: + + ./dorsal.sh FEniCS/platforms/supported/myplatform.platform + + 4. Once you've completed these steps, hit enter to begin the + installation! + + If all goes according to plan, you should see a lot of + compilation-related text scroll past your screen and eventually end + up with a complete, up-to-date installation of various FEniCS + projects and their corresponding dependencies. + + Don't forget to follow any post-build instructions before rushing + off to try the demos! + + + Repeated builds + + The FEniCS Project is under active development. If you are + interested in keeping up with the development versions of its + components, you will want to frequently rerun dorsal.sh (with + STABLE_BUILD set to false in dorsal.cfg). + + Unfortunately, Dorsal is not currently smart enough to automatically + figure out what it has previously installed. It will insist on + rebuilding all projects and their dependencies, even though you are + probably only interested in tracking a few fast-changing FEniCS + Project components. + + In order to get around this limitation, Dorsal has a package + skipping mechanism which you can use to manually specify packages + you would like it to skip on subsequent rebuilds. The following + steps describe how you use this mechanism to rebuild just the + projects you want to track. + + 1. Ensure that STABLE_BUILD set to false in dorsal.cfg. This makes + sure Dorsal knows to fetch and build development versions of + projects. + + 2. Create a new copy of your system's platform file + (system.platform) in the platforms folder. Call it, say, + myplatform.platform. + + cd FEniCS/platforms/supported + cp system.platform myplatform.platform + + 3. Open myplatform.platform in your favourite text editor, and + prepend the string `skip:' (without the quotes) before every + package on the list PACKAGES you would like Dorsal to skip on + subsequent builds. So now, your list might look something like + the following: + + PACKAGES=( + skip:parmetis + skip:petsc + skip:slepc + skip:gmp + skip:mtl + skip:trilinos + skip:scotch + fiat + ferari + ufc + ufl + ffc + viper + instant + dolfin + ) + + See the file fenics.platform for an example of what I use on my + (Mac OS X Snow Leopard) machine. Notice that this file is + identical to snowleopard.platform, with a few packages 'skip:'ped. + + 4. Now, every time you wish to rebuild just the few packages you + want to track, invoke Dorsal via: + + ./dorsal.sh FEniCS/platforms/supported/myplatform.platform + + Using Dorsal in this manner should save you a lot of time if you + need to rebuild FEniCS often. + + + Coexisting stable and development builds + + Another common requirement is tracking both stable releases (to get + actual work done!) and development versions (to check out and + contribute to new functionality) of FEniCS Project components. + + In order to achieve this, you: + + 1. Modify the variables in dorsal.cfg to build stable releases of + FEniCS Project components and install them in some convenient + location. e.g., + + DOWNLOAD_PATH=${HOME}/Work/FEniCS/stable/src + INSTALL_PATH=${HOME}/Work/FEniCS/stable + STABLE_BUILD=true + + 2. Invoke the build script by running: + + ./dorsal.sh + + 3. Modify the variables in dorsal.cfg to build development versions + of FEniCS Project components and install them in another + location. e.g., + + DOWNLOAD_PATH=${HOME}/Work/FEniCS/unstable/src + INSTALL_PATH=${HOME}/Work/FEniCS/unstable + STABLE_BUILD=false + + 4. Invoke the build script once more by running: + + ./dorsal.sh + + + Mixed stable and development builds + + A final use case is tracking an arbitrary mix of stable releases and + development versions of FEniCS Project components. It is sometimes + necessary to do this when you want to follow bleeding edge versions + of some FEniCS projects, but some others are simultaneously broken. + + In order to achieve this, you: + + 1. Ensure STABLE_BUILD=false in dorsal.cfg to make sure Dorsal + knows to go and fetch development versions of packages by + default. + + 2. Create a new copy of your system's platform file + (system.platform) in the platforms folder. Call it, say, + myplatform.platform. + + cd platforms + cp system.platform myplatform.platform + + 3. Open myplatform.platform in your favourite text editor, and + append the string `-stable' to all the packages you want stable + versions of. So now, your list might look something like the + following: + + PACKAGES=( + ... + fiat + ferari + ufc-stable + ufl + ffc-stable + viper + instant + dolfin + ) + + 4. Now, invoke Dorsal via: + + ./dorsal.sh FEniCS/platforms/supported/myplatform.platform + + Installing FEniCS with CUDA support + + Dorsal can build PETSc with support for CUDA, using the Cusp and Thrust + libraries. This enables DOLFIN to use PETSc's interfacing to Cusp for GPU + acceleration of the solution of linear systems. Before builing with Dorsal, + you must manually install CUDA and verify the installation. Instructions + are provided at NVIDIA's webpages: www.nvidia.com. + + After instaling CUDA, do the following to have Dorsal build PETSc + with CUDA support: + + 1. Set the variable CUDA_DIR, either in your environment: + + export CUDA_DIR= (default /usr/local/cuda) + + or in the .platform file corresponding to your system: + + default CUDA_DIR= + + 2. Add "cusp" to the list of packages to install in your the .platform-file + corresponding to your system. It's important to add "cusp" before "petsc", + like this: + + PACKAGES=( + cusp + ... + petsc + ... + dolfin + ) + + 3. Invoke dorsal.sh as usual. + + + Troubleshooting and getting help + + If you run into any problems, ensure that you've installed all the + preliminary dependencies for your platform (usually from the system + package manager) that Dorsal assumes you already have. An incomplete + list of this is provided in the .platform file for each platform, + along with platform-specific tips. In most cases, these should solve + your problem. + + If you know Dorsal supports your platform but it fails to + automatically recognise it, try invoking Dorsal by specifying your + platform manually: + + ./dorsal.sh FEniCS/platforms/supported/myplatform.platform + + If you're having further difficulty, please see + http://fenicsproject.org/support for contact information. We will + try to help. + + + Elements of Dorsal's design + + Dorsal is written in bash and its design is based on a simplified + version of the FreeBSD Ports system. The main Dorsal script + (dorsal.sh) can be a bit magic in a few places (mostly thanks to ace + bash hacker Joachim Berdal Haga), but at the level a user interacts + with it, Dorsal is pretty uncomplicated. + + Here is the entire story. + + Platform files are files specific to a given platform. These files + live in the `platforms' folder and have the suffix + `.platform'. These files contain any system specific variables, + build instructions, and contains a list of packages that Dorsal + needs to build. Usually, the more packages that your system package + manager can handle, the smaller this list will be. + + If you are interested in adding support for a new platform, you + should look for an existing platform that is similar to yours, make + a copy of it, and try to modify it to suit your needs. + + In order to inform Dorsal how to build each package, we introduce + package files. Not surprisingly, package files have the suffix + `.package' and live in the `packages' folder. These files specify + several package details, including where the package should be + downloaded from, how it is packed, what buildchain it uses, any + package-specific build instructions if needed, etc. A superset of + these attributes are documented in packages/template.package. + + If you are interested in adding support for a new package, take a + look at packages/template.package, as well as other related packages + for ideas. + + A majority of the package files are only 3--4 lines long, but some + highly-specialised ones (e.g. dolfin.package) are significantly + bigger. Through needing to support a large number of varied + packages, Dorsal has evolved a fairly flexible package definition + structure. In my opinion, this is what gives Dorsal its + versatility. + + When you invoke Dorsal via: + + ./dorsal.sh FEniCS/platforms/supported/myplatform.platform + + the build script sets any platform specific variables defined in + myplatform.platform, and attempts to build and install each package + in the list PACKAGES. For each package in the list, it looks at the + corresponding package file for hints on how to treat the package. + + Furthermore, when Dorsal is invoked without any arguments: + + ./dorsal.sh + + it tries to do an additional step. Dorsal first tries to guess an + appropriate platform file for your system (by probing your operating + system for something specific to it), and then proceeds to work on + that platform file. + + That completes the story. diff --git a/candi.cfg b/candi.cfg new file mode 100644 index 0000000..96be80e --- /dev/null +++ b/candi.cfg @@ -0,0 +1,75 @@ +# Global configuration variables go here. You will want to tweak this +# file to suit your needs. If you want to keep local changes that are +# not overwritten by repository updates, those can be written +# to local.cfg instead (entries there will override those in this file). + +# Meta-project to build +PROJECT=deal.II +CLEAN_BUILD=false + +######################################################################### +#Choose components of deal.II +DEAL_CONFOPTS=" \ +-D CMAKE_BUILD_TYPE=DebugRelease \ +-D DEAL_II_COMPONENT_DOCUMENTATION:BOOL=OFF \ +-D DEAL_II_WITH_ARPACK:BOOL=OFF \ +-D DEAL_II_WITH_BOOST:BOOL=ON \ +-D DEAL_II_WITH_FUNCTIONPARSER:BOOL=ON \ +-D DEAL_II_WITH_LAPACK:BOOL=ON \ +-D DEAL_II_WITH_METIS:BOOL=OFF \ +-D DEAL_II_WITH_MUMPS:BOOL=OFF \ +-D DEAL_II_WITH_MPI:BOOL=ON \ +-D DEAL_II_WITH_NETCDF:BOOL=OFF \ +-D DEAL_II_WITH_P4EST:BOOL=ON \ +-D DEAL_II_WITH_PETSC:BOOL=ON \ +-D DEAL_II_WITH_SLEPC:BOOL=ON \ +-D DEAL_II_WITH_THREADS:BOOL=OFF \ +-D DEAL_II_WITH_TRILINOS:BOOL=ON \ +-D DEAL_II_WITH_UMFPACK:BOOL=ON \ +-D DEAL_II_WITH_ZLIB:BOOL=ON \ +-D DEAL_II_WITH_HDF5:BOOL=ON \ +" + +# Please add the following path(es) to DEAL_CONFOPTS ahead, +# if you wish to use (self-compiled) versions of them together +# with deal.II. +# Make sure, that the coinciding option is setted to "ON". +# If you want to use the packages from your system, you +# may not set the variables (usually deal.II is smart enough +# to recognise them automatically). +# If you want to install the packages using CANDI, +# simply set the option to ON and do NOT specify the path, +# this will be done automatically elsewhere. +# +#-D ARPACK_DIR= \ +#-D METIS_DIR= \ +#-D MUMPS_DIR= \ +#-D P4EST_DIR= \ +#-D TRILINOS_DIR= \ +#-D HDF5_DIR= \ + +######################################################################### +# Prefix directory +PREFIX_PATH=${HOME}/apps/candi +COMPILER=native-openmpi + +# Where do you want the downloaded source files to go? +DOWNLOAD_PATH=${PREFIX_PATH}/src + +# Where do you want to unpack source files to go? +UNPACK_PATH=${PREFIX_PATH}/unpack + +# Where do you want the build files to go? +BUILD_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER}-build + +# Where do you want the compiled software installed? +INSTALL_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER} + +# How many processes would you like to build using? +PROCS=1 + +# Would you like to build stable versions of projects? +# If STABLE_BUILD=false, then the development version of deal.II will be +# installed. +STABLE_BUILD=true + diff --git a/candi.sh b/candi.sh new file mode 100755 index 0000000..3ef631e --- /dev/null +++ b/candi.sh @@ -0,0 +1,626 @@ +#!/usr/bin/env bash +set -a + +# Copyright (C) 2013-2014 by Uwe Koecher # +# AND by the DORSAL Authors, cf. the file AUTHORS for details # +# # +# This file is part of CANDI. # +# # +# CANDI is free software: you can redistribute it and/or modify # +# it under the terms of the GNU Lesser General Public License as # +# published by the Free Software Foundation, either # +# version 2.1 of the License, or (at your option) any later version. # +# # +# CANDI is distributed in the hope that it will be useful, # +# but WITHOUT ANY WARRANTY; without even the implied warranty of # +# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the # +# GNU Lesser General Public License for more details. # +# # +# You should have received a copy of the GNU Lesser General Public License # +# along with CANDI. If not, see . # + +# REMARK: CANDI (Compile & Install) is a majorly tweaked and extended # +# software based on DORSAL. # +# The origin is DORSAL (also licensed under the LGPL): # +# https://bitbucket.org/fenics-project/dorsal/src # +# master c667be2 2013-11-27 # + +# The Unix date command does not work with nanoseconds, so use +# the GNU date instead. This is available in the 'coreutils' package +# from MacPorts. +if builtin command -v gdate > /dev/null; then + DATE_CMD=$(which gdate) +else + DATE_CMD=$(which date) +fi + +# Start global timer +TIC_GLOBAL="$(${DATE_CMD} +%s%N)" + +# Colours for progress and error reporting +BAD="\033[1;31m" +GOOD="\033[1;32m" +WARN="\033[1;34m" +BOLD="\033[1m" + +### Define helper functions ### + +prettify_dir() { + # Make a directory name more readable by replacing homedir with "~" + echo ${1/#$HOME\//~\/} +} + +cecho() { + # Display messages in a specified colour + COL=$1; shift + echo -e "${COL}$@\033[0m" +} + +default () { + # Export a variable, if it is not already set + VAR="${1%%=*}" + VALUE="${1#*=}" + eval "[[ \$$VAR ]] || export $VAR='$VALUE'" +} + +quit_if_fail() { + # Exit with some useful information if something goes wrong + STATUS=$? + if [ ${STATUS} -ne 0 ]; then + cecho ${BAD} 'Failure with exit status:' ${STATUS} + cecho ${BAD} 'Exit message:' $1 + exit ${STATUS} + fi +} + +package_fetch () { + # First, make sure we're in the right directory before downloading + cd ${DOWNLOAD_PATH} + + cecho ${GOOD} "Fetching ${NAME}" + + # Fetch the package appropriately from its source + if [ ${PACKING} = ".tar.bz2" ] || [ ${PACKING} = ".tar.gz" ] || [ ${PACKING} = ".tbz2" ] || [ ${PACKING} = ".tgz" ] || [ ${PACKING} = ".tar.xz" ] || [ ${PACKING} = ".zip" ]; then + # Only download archives that do not exist + if [ ! -e ${NAME}${PACKING} ]; then + if [ ${STABLE_BUILD} = false ] && [ ${USE_SNAPSHOTS} = true ]; then + wget --retry-connrefused --no-check-certificate --server-response -c ${SOURCE}${NAME}${PACKING} -O ${NAME}${PACKING} + else + wget --retry-connrefused --no-check-certificate -c ${SOURCE}${NAME}${PACKING} -O ${NAME}${PACKING} + fi + fi + + # Download again when using snapshots and unstable packages, but + # only when the timestamp has changed + if [ ${STABLE_BUILD} = false ] && [ ${USE_SNAPSHOTS} = true ]; then + wget --timestamping --retry-connrefused --no-check-certificate ${SOURCE}${NAME}${PACKING} + fi + elif [ ${PACKING} = "hg" ]; then + cd ${UNPACK_PATH} + # Suitably clone or update hg repositories + if [ ! -d ${NAME} ]; then + hg clone ${SOURCE}${NAME} + else + cd ${NAME} + hg pull --update + cd .. + fi + elif [ ${PACKING} = "svn" ]; then + cd ${UNPACK_PATH} + # Suitably check out or update svn repositories + if [ ! -d ${NAME} ]; then + svn co ${SOURCE} ${NAME} + else + cd ${NAME} + svn up + cd .. + fi + elif [ ${PACKING} = "git" ]; then + cd ${UNPACK_PATH} + # Suitably clone or update git repositories + if [ ! -d ${NAME} ]; then + git clone ${SOURCE}${NAME} + else + cd ${NAME} + git pull + cd .. + fi + elif [ ${PACKING} = "bzr" ]; then + cd ${UNPACK_PATH} + # Suitably branch or update bzr repositories + if [ ! -d ${NAME} ]; then + bzr branch ${SOURCE}${NAME} + else + cd ${NAME} + bzr pull + cd .. + fi + fi + + # Quit with a useful message if something goes wrong + quit_if_fail "Error fetching ${NAME}." +} + +package_verify() { + # First make sure we're in the right directory before verifying checksum + cd ${DOWNLOAD_PATH} + + # Only need to verify archives + if [ ${PACKING} = ".tar.bz2" ] || [ ${PACKING} = ".tar.gz" ] || [ ${PACKING} = ".tbz2" ] || ${PACKING} = ".tgz" ] || [ ${PACKING} = ".tar.xz" ] || [ ${PACKING} = ".zip" ]; then + cecho ${GOOD} "Verifying ${NAME}${PACKING}" + + # Check checksum has been specified for the package + if [ -z "${CHECKSUM}" ]; then + cecho ${WARN} "No checksum for ${NAME}${PACKING}" + return 1 + fi + + # Skip checksum if asked to ignore + if [ "${CHECKSUM}" = "ignore" ]; then + cecho ${WARN} "Skipped checksum check for ${NAME}${PACKING}" + return 1 + fi + + # Make sure the archive was downloaded + if [ ! -e ${NAME}${PACKING} ]; then + cecho ${BAD} "${NAME}${PACKING} does not exist. Please download first." + exit 1 + fi + + # Verify checksum using md5/md5sum + if builtin command -v md5 > /dev/null; then + test "${CHECKSUM}" = "$(md5 -q ${NAME}${PACKING})" && echo "${NAME}${PACKING}: OK" + elif builtin command -v md5sum > /dev/null; then + echo "${CHECKSUM} ${NAME}${PACKING}" | md5sum --check - + else + cecho ${BAD} "Neither md5 nor md5sum were found in the PATH" + return 1 + fi + fi + + # Quit with a useful message if something goes wrong + quit_if_fail "Error verifying checksum for ${NAME}${PACKING}" +} + + +package_unpack() { + # First make sure we're in the right directory before unpacking + cd ${UNPACK_PATH} + FILE_TO_UNPACK=${DOWNLOAD_PATH}/${NAME}${PACKING} + + # Only need to unpack archives + if [ ${PACKING} = ".tar.bz2" ] || [ ${PACKING} = ".tar.gz" ] || [ ${PACKING} = ".tbz2" ] || [ ${PACKING} = ".tgz" ] || [ ${PACKING} = ".tar.xz" ] || [ ${PACKING} = ".zip" ]; then + cecho ${GOOD} "Unpacking ${NAME}" + # Make sure the archive was downloaded + if [ ! -e ${FILE_TO_UNPACK} ]; then + cecho ${BAD} "${FILE_TO_UNPACK} does not exist. Please download first." + exit 1 + fi + + # Unpack the archive only if it isn't already or when using + # snapshots and unstable packages + if [ ${STABLE_BUILD} = false ] && [ ${USE_SNAPSHOTS} = true ] || [ ! -d "${EXTRACTSTO}" ]; then + # Unpack the archive in accordance with its packing + if [ ${PACKING} = ".tar.bz2" ] || [ ${PACKING} = ".tbz2" ]; then + tar xjf ${FILE_TO_UNPACK} + elif [ ${PACKING} = ".tar.gz" ] || [ ${PACKING} = ".tgz" ]; then + tar xzf ${FILE_TO_UNPACK} + elif [ ${PACKING} = ".tar.xz" ]; then + tar xJf ${FILE_TO_UNPACK} + elif [ ${PACKING} = ".zip" ]; then + unzip ${FILE_TO_UNPACK} + fi + fi + fi + + unset FILE_TO_UNPACK + + # Quit with a useful message if something goes wrong + quit_if_fail "Error unpacking ${NAME}." +} + +package_build() { + # Get things ready for the compilation process + cecho ${GOOD} "Building ${NAME}" + if [ ! -d "${EXTRACTSTO}" ]; then + cecho ${BAD} "${EXTRACTSTO} does not exist -- please unpack first." + exit 1 + fi + + # Set the BUILDDIR if nothing else was specified + default BUILDDIR=${BUILD_PATH}/${NAME} + + # Clean the build directory if specified + if [ -d ${BUILDDIR} ] && [ ${CLEAN_BUILD} = "true" ]; then + rm -rf ${BUILDDIR} + fi + + # Create build directory if it does not exist + if [ ! -d ${BUILDDIR} ]; then + mkdir -p ${BUILDDIR} + fi + + # Move to the build directory + cd ${BUILDDIR} + + # Carry out any package-specific setup + package_specific_setup + quit_if_fail "There was a problem in build setup for ${NAME}." + + # Use the appropriate build system to compile and install the + # package + for cmd_file in candi_configure candi_build; do + echo "#!/usr/bin/env bash" >${cmd_file} + chmod a+x ${cmd_file} + + # Write variables to files so that they can be run stand-alone + declare -x| grep -v "!::"| grep -v "ProgramFiles(x86)" >>${cmd_file} + + # From this point in candi_*, errors are fatal + echo "set -e" >>${cmd_file} + done + + if [ ${BUILDCHAIN} = "autotools" ]; then + if [ -f ${UNPACK_PATH}/${EXTRACTSTO}/configure ]; then + echo ${UNPACK_PATH}/${EXTRACTSTO}/configure ${CONFOPTS} --prefix=${INSTALL_PATH} >>candi_configure + fi + + for target in "${TARGETS[@]}"; do + echo make ${MAKEOPTS} -j ${PROCS} $target >>candi_build + done + elif [ ${BUILDCHAIN} = "python" ]; then + echo cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . >>candi_configure + echo python setup.py install --prefix=${INSTALL_PATH} >>candi_build + elif [ ${BUILDCHAIN} = "scons" ]; then + echo cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . >>candi_configure + for target in "${TARGETS[@]}"; do + echo scons -j ${PROCS} ${SCONSOPTS} prefix=${INSTALL_PATH} $target >>candi_build + done + elif [ ${BUILDCHAIN} = "cmake" ]; then + echo cmake ${CONFOPTS} -DCMAKE_INSTALL_PREFIX=${INSTALL_PATH} ${UNPACK_PATH}/${EXTRACTSTO} >>candi_configure + for target in "${TARGETS[@]}"; do + echo make ${MAKEOPTS} -j ${PROCS} $target >>candi_build + done +# for target in "${TARGETS[@]}"; do +# echo make -C ${BUILDDIR} ${MAKEOPTS} -j ${PROCS} $target >>candi_build +# done + elif [ ${BUILDCHAIN} = "custom" ]; then + # Write the function definition to file + declare -f package_specific_build >>candi_build + echo package_specific_build >>candi_build + fi + echo "touch candi_successful_build" >> candi_build + + # Run the generated build scripts + if [ ${BASH_VERSINFO} -ge 3 ]; then + set -o pipefail + ./candi_configure 2>&1 | tee candi_configure.log + else + ./candi_configure + fi + quit_if_fail "There was a problem configuring ${NAME}." + + if [ ${BASH_VERSINFO} -ge 3 ]; then + set -o pipefail + ./candi_build 2>&1 | tee candi_build.log + else + ./candi_build + fi + quit_if_fail "There was a problem building ${NAME}." + + # Carry out any package-specific post-build instructions + package_specific_install + quit_if_fail "There was a problem in post-build instructions for ${NAME}." +} + +package_register() { + # Set any package-specific environment variables + package_specific_register + quit_if_fail "There was a problem setting environment variables for ${NAME}." +} + +package_conf() { + # Write any package-specific environment variables to a config file, + # i.e. e.g. a modulefile or source-able *.conf file + package_specific_conf + quit_if_fail "There was a problem creating the configfiles for ${NAME}." +} + +guess_platform() { + # Try to guess the name of the platform we're running on + if [ -f /usr/bin/cygwin1.dll ] + then + echo cygwin + elif [ -f /etc/fedora-release ] + then + local FEDORANAME=`gawk '{if (match($0,/\((.*)\)/,f)) print f[1]}' /etc/fedora-release` + case ${FEDORANAME} in + "Schrödinger’s Cat"*) echo fedora19;; + Heisenbug*) echo fedora20;; + esac + elif [ -x /usr/bin/sw_vers ] + then + local MACOSVER=$(sw_vers -productVersion) + case ${MACOSVER} in + 10.4*) echo tiger;; + 10.5*) echo leopard;; + 10.6*) echo snowleopard;; + 10.7*) echo lion;; + 10.8*) echo mountainlion;; + esac + elif [ -x /usr/bin/lsb_release ]; then + local DISTRO=$(lsb_release -i -s) + local CODENAME=$(lsb_release -c -s) + local DESCRIPTION=$(lsb_release -d -s) + case ${DISTRO}:${CODENAME}:${DESCRIPTION} in + *:*:*Ubuntu*\ 13*) echo ubuntu13;; + *:Tikanga*:*) echo rhel5;; + *:Santiago*:*) echo rhel6;; + Scientific:Carbon*:*) echo rhel6;; + *:*:*CentOS*\ 5*) echo rhel5;; + *:*:*CentOS*\ 6*) echo rhel6;; + *:*:*openSUSE\ 12*) echo opensuse12;; + *:*:*openSUSE\ 13*) echo opensuse13;; + esac + fi +} + +guess_architecture() { + # Try to guess the architecture of the platform we are running on + ARCH=unknown + if [ -x /usr/bin/uname -o -x /bin/uname ] + then + ARCH=`uname -m` + fi +} + +############################################################################### +# Start the build process + +export ORIG_DIR=`pwd` + +# Read configuration variables from candi.cfg +source candi.cfg + +# For changes specific to your local setup or for debugging, use local.cfg +if [ -f local.cfg ]; then + source local.cfg +fi + +# If any variables are missing, revert them to defaults +default PROJECT=deal.II +default DOWNLOAD_PATH=${HOME}/apps/candi/${PROJECT}/src +default UNPACK_PATH=${HOME}/apps/candi/${PROJECT}/unpack +default BUILD_PATH=${HOME}/apps/candi/${PROJECT}/build +default CLEAN_BUILD=false +default INSTALL_PATH=${HOME}/apps/candi/${PROJECT} +default PROCS=1 +default STABLE_BUILD=true +default USE_SNAPSHOTS=false + +# Check if project was specified correctly +if [ -d ${PROJECT} ]; then + if [ -d ${PROJECT}/platforms -a -d ${PROJECT}/packages ]; then + cecho ${GOOD} "Found configuration for project ${PROJECT}." + else + cecho ${BAD} "No subdirectories 'platforms' and 'packages' in ${PROJECT}." + echo "Please make sure there exists proper project configuration directory." + exit 1 + fi +else + cecho ${BAD} "Error: No project configuration directory found for project ${PROJECT}." + echo "Please check if you have specified right project name in candi.cfg" + echo "Please check if you have directory called ${PROJECT}" + echo "with subdirectories ${PROJECT}/platforms and ${PROJECT}/packages" + exit 1 +fi + +# Check if candi.sh was invoked correctly +if [ $# -eq 0 ]; then + PLATFORM_SUPPORTED=${PROJECT}/platforms/supported/`guess_platform`.platform + PLATFORM_CONTRIBUTED=${PROJECT}/platforms/contributed/`guess_platform`.platform + PLATFORM_DEPRECATED=${PROJECT}/platforms/deprecated/`guess_platform`.platform + if [ -e ${PLATFORM_SUPPORTED} ]; then + PLATFORM=${PLATFORM_SUPPORTED} + cecho ${GOOD} "Building ${PROJECT} using ${PLATFORM}." + elif [ -e ${PLATFORM_CONTRIBUTED} ]; then + PLATFORM=${PLATFORM_CONTRIBUTED} + cecho ${GOOD} "Building ${PROJECT} using ${PLATFORM}." + cecho ${BOLD} "Warning: Platform is not officially supported but may still work!" + elif [ -e ${PLATFORM_DEPRECATED} ]; then + PLATFORM=${PLATFORM_DEPRECATED} + cecho ${GOOD} "Building ${PROJECT} using ${PLATFORM}." + cecho ${BAD} "Warning: Platform is deprecated and will be removed shortly but may still work!" + else + cecho ${BAD} "Error: Platform to build for not specified (and not automatically recognised)." + echo "If you know the platform you are interested in (myplatform), please specify it directly, as:" + echo "./candi.sh ${PROJECT}/platforms/myplatform.platform" + echo "If you'd like to learn more, refer to the file USAGE for detailed usage instructions." + exit 1 + fi + echo "-------------------------------------------------------------------------------" + # Show the initial comments in the platform file, as it often + # contains instructions about packages that should be installed + # first, etc. Remove first field '#' so that cut-and-paste of + # e.g. apt-get commands is easy. + awk '/^##/ {exit} {$1=""; print}' <${PLATFORM} + echo + echo "Downloading files to: $(prettify_dir ${DOWNLOAD_PATH})" + echo "Unpacking files to: $(prettify_dir ${UNPACK_PATH})" + echo "Building projects in: $(prettify_dir ${BUILD_PATH})" + echo "Installing projects in: $(prettify_dir ${INSTALL_PATH})" + echo + if [ ${STABLE_BUILD} = true ]; then + echo "Building stable point-releases of ${PROJECT} projects." + else + if [ ${USE_SNAPSHOTS} = true ]; then + echo "Building development versions of ${PROJECT} projects (using snapshots)." + else + echo "Building development versions of ${PROJECT} projects." + fi + fi + echo "-------------------------------------------------------------------------------" + cecho ${GOOD} "Please make sure you've read the instructions above and your system" + cecho ${GOOD} "is ready for installing ${PROJECT}. We find it easiest to copy and paste" + cecho ${GOOD} "these instructions in another terminal window." + + if builtin command -v module > /dev/null; then + echo "" + echo "-------------------------------------------------------------------------------" + cecho ${GOOD} "$(module list)" + echo "-------------------------------------------------------------------------------" + fi + + echo "" + cecho ${GOOD} "Once ready, hit enter to continue!" + read +elif [ $# -eq 1 ]; then + PLATFORM=${1} +elif [ $# -eq 2 ]; then + # Check if the user wants to install a single package + if [ ${1} == "install-package" ]; then + PACKAGE=${2} + # Check if the package exists + if [ ! -e ${PROJECT}/packages/${PACKAGE}.package ]; then + cecho ${BAD} "${PROJECT}/packages/${PACKAGE}.package does not exist yet. Please create it." + exit 1 + fi + PACKAGES=(${PACKAGE}) + PLATFORM="${PROJECT}/platforms/.single" + else + echo "If you'd like to install a single package, please use the syntax:" + echo "./candi.sh install-package foo" + exit 1 + fi +fi + +# Make sure the requested platform exists +if [ -e "${PLATFORM}" ]; then + source ${PLATFORM} +else + cecho ${BAD} "Platform set '${PLATFORM}' not found. Refer to the file README to check if your platform is supported." + exit 1 +fi + +# If the platform doesn't override the system python by installing its +# own, figure out the version of the existing python +default PYTHONVER=`python -c "import sys; print sys.version[:3]"` + +# Create necessary directories and set appropriate variables +mkdir -p ${DOWNLOAD_PATH} +mkdir -p ${UNPACK_PATH} +mkdir -p ${BUILD_PATH} +mkdir -p ${INSTALL_PATH} + +ORIG_INSTALL_PATH=${INSTALL_PATH} +ORIG_PROCS=${PROCS} +guess_architecture + +# Reset timings +TIMINGS="" + +# Fetch and build individual packages +for PACKAGE in ${PACKAGES[@]}; do + # Start timer + TIC="$(${DATE_CMD} +%s%N)" + + # Return to the main CANDI directory + cd ${ORIG_DIR} + + # Skip building this package if the user requests it + SKIP=false + case ${PACKAGE} in + skip:*) SKIP=true; PACKAGE=${PACKAGE#*:};; + once:*) SKIP=maybe; PACKAGE=${PACKAGE#*:};; + esac + + # Check if the package exists + if [ ! -e ${PROJECT}/packages/${PACKAGE}.package ]; then + cecho ${BAD} "${PROJECT}/packages/${PACKAGE}.package does not exist yet. Please create it." + exit 1 + fi + + # Reset package-specific variables + unset NAME + unset VERSION + unset SOURCE + unset PACKING + unset EXTRACTSTO + unset CHECKSUM + unset BUILDCHAIN + unset BUILDDIR + unset CONFOPTS + unset MAKEOPTS + unset SCONSOPTS + unset CONFIG_FILE + TARGETS=('' install) + PROCS=${ORIG_PROCS} + INSTALL_PATH=${ORIG_INSTALL_PATH} + + # Reset package-specific functions + package_specific_setup () { true; } + package_specific_build () { true; } + package_specific_install () { true; } + package_specific_register () { true; } + package_specific_conf() { true; } + + # Fetch information pertinent to the package + source ${PROJECT}/packages/${PACKAGE}.package + + # Turn to a stable version of the package if that's what the user + # wants and it exists + if [ ${STABLE_BUILD} = true ] && [ -e ${PROJECT}/packages/${PACKAGE}-stable.package ]; then + source ${PROJECT}/packages/${PACKAGE}-stable.package + elif [ ${STABLE_BUILD} = false ] && [ ${USE_SNAPSHOTS} = true ] && [ -e ${PROJECT}/packages/${PACKAGE}-snapshot.package ]; then + source ${PROJECT}/packages/${PACKAGE}-snapshot.package + fi + + # Ensure that the package file is sanely constructed + if [ ! "${BUILDCHAIN}" ]; then + cecho ${BAD} "${PACKAGE}.package is not properly formed. Please check that all necessary variables are defined." + exit 1 + fi + + if [ ! "${BUILDCHAIN}" = "ignore" ] ; then + if [ ! "${NAME}" ] || [ ! "${SOURCE}" ] || [ ! "${PACKING}" ]; then + cecho ${BAD} "${PACKAGE}.package is not properly formed. Please check that all necessary variables are defined." + exit 1 + fi + fi + + # Most packages extract to a directory named after the package + default EXTRACTSTO=${NAME} + + if [ ${SKIP} = maybe ] && [ ! -f ${BUILD_PATH}/${NAME}/candi_successful_build ]; then + SKIP=false + fi + + # Fetch, unpack and build package + if [ ${SKIP} = false ]; then + # Fetch, unpack and build the current package + package_fetch + package_verify + package_unpack + package_build + else + # Let the user know we're skipping the current package + cecho ${GOOD} "Skipping ${NAME}" + fi + package_register + package_conf + + # Store timing + TOC="$(($(${DATE_CMD} +%s%N)-TIC))" + TIMINGS="$TIMINGS"$"\n""$PACKAGE: ""$((TOC/1000000000)) s" +done + +# Stop global timer +TOC_GLOBAL="$(($(${DATE_CMD} +%s%N)-TIC_GLOBAL))" + +# Display a summary +echo +cecho ${GOOD} "Build finished in $((TOC_GLOBAL/1000000000)) seconds." +echo +echo "Summary of timings:" +echo -e "$TIMINGS" + diff --git a/deal.II/packages/boost.package b/deal.II/packages/boost.package new file mode 100644 index 0000000..025f136 --- /dev/null +++ b/deal.II/packages/boost.package @@ -0,0 +1,27 @@ +NAME=boost_1_55_0 +SOURCE=http://downloads.sourceforge.net/boost/ +PACKING=.tar.bz2 +CHECKSUM=d6eef4b4cacb2183f2bf265a5a03a354 +BUILDCHAIN=custom + +if [ ! -z "${BZIP2_DIR}" ]; then + CONFOPTS="${CONFOPTS} + -sNO_BZIP2=0 + -sBZIP2_BINARY=bz2 + -sBZIP2_INCLUDE=${BZIP2_DIR}/include + -sBZIP2_LIBPATH=${BZIP2_DIR}/lib" +fi + +package_specific_build () { + cp -rf ${UNPACK_PATH}/${NAME}/* . + ./bootstrap.sh --prefix=${INSTALL_PATH} + echo "using mpi ;" > user-config.jam + ./b2 -j ${PROCS} --user-config=user-config.jam --build-dir=candi_build_dir link=shared install ${CONFOPTS} +} + +package_specific_register () { + export BOOST_ROOT=${INSTALL_PATH} + export BOOST_INCLUDEDIR=${INSTALL_PATH}/include + export BOOST_LIBRARYDIR=${INSTALL_PATH}/lib + export BOOST_USE_MULTITHREADED=OFF +} diff --git a/deal.II/packages/dealii-snapshot.package b/deal.II/packages/dealii-snapshot.package new file mode 100644 index 0000000..1ef1236 --- /dev/null +++ b/deal.II/packages/dealii-snapshot.package @@ -0,0 +1,47 @@ +NAME=deal.II-svn +SOURCE=https://svn.dealii.org/trunk/deal.II +PACKING=svn +BUILDCHAIN=custom + +CONFOPTS=" \ +${DEAL_CONFOPTS} \ +" + +CONFOPTS="${CONFOPTS} \ +-D HDF5_DIR=${HDF5_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D TRILINOS_DIR=${TRILINOS_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D PETSC_DIR=${PETSC_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D SLEPC_DIR=${SLEPC_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D CMAKE_INSTALL_PREFIX:PATH="${INSTALL_PATH}" \ +" + +package_specific_setup () { + echo "Build ${NAME} in ${BUILD_PATH}/${NAME}" + mkdir -p "${BUILD_PATH}/${NAME}" + cd "${BUILD_PATH}/${NAME}" + + DEALII_SOURCE="${DOWNLOAD_PATH}/${EXTRACTSTO}" + + # configure + cmake ${CONFOPTS} ${DEALII_SOURCE} + + # make + make -j${PROCS} + make install +} + +package_specific_register () { + export DEALII_DIR=${INSTALL_PATH} +} diff --git a/deal.II/packages/dealii-stable.package b/deal.II/packages/dealii-stable.package new file mode 100644 index 0000000..281d946 --- /dev/null +++ b/deal.II/packages/dealii-stable.package @@ -0,0 +1,8 @@ +VERSION=8.1.0 +NAME=deal.II-${VERSION} +SOURCE=https://dealii.googlecode.com/files/ +PACKING=.tar.gz +CHECKSUM=aa8fadc2ce5eb674f44f997461bf668d +BUILDCHAIN=cmake +EXTRACTSTO=deal.II + diff --git a/deal.II/packages/dealii.package b/deal.II/packages/dealii.package new file mode 100644 index 0000000..4a80bda --- /dev/null +++ b/deal.II/packages/dealii.package @@ -0,0 +1,60 @@ +VERSION=svn +NAME=deal.II-${VERSION} +SOURCE=https://svn.dealii.org/trunk/deal.II +PACKING=svn +BUILDCHAIN=cmake + +CONFOPTS=" \ +${DEAL_CONFOPTS} \ +" + +CONFOPTS="${CONFOPTS} \ +-D HDF5_DIR=${HDF5_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D TRILINOS_DIR=${TRILINOS_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D PETSC_DIR=${PETSC_DIR} \ +" + +CONFOPTS="${CONFOPTS} \ +-D SLEPC_DIR=${SLEPC_DIR} \ +" + +# ********************************************************************************** +package_specific_conf() { +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/deal.II/${COMPILER} +CONFIG_FILE=${MODULEFILE_PATH}/${VERSION} +CURRENT_MODULES=$(echo ${LOADEDMODULES} | sed 's/:/\ /') + + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# deal.II module for use with 'environment-modules' package: +# +module-whatis "Provides the deal.II toolbox." +conflict deal.II +module load ${CURRENT_MODULES} + +setenv DEAL_II_DIR ${INSTALL_PATH} +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo + + export DEAL_II_DIR=${INSTALL_PATH} +} + diff --git a/deal.II/packages/hdf5.package b/deal.II/packages/hdf5.package new file mode 100644 index 0000000..5ec2792 --- /dev/null +++ b/deal.II/packages/hdf5.package @@ -0,0 +1,13 @@ +VERSION=1.8.12 +NAME=hdf5-${VERSION} +SOURCE=http://www.hdfgroup.org/ftp/HDF5/releases/${NAME}/src/ +PACKING=.tar.gz +CHECKSUM=d804802feb99b87fc668a90e6fa34411 +BUILDCHAIN=autotools + +CONFOPTS="--enable-shared --enable-parallel" + +package_specific_register () { + export HDF5_DIR=${INSTALL_PATH} +} + diff --git a/deal.II/packages/hwloc.package b/deal.II/packages/hwloc.package new file mode 100644 index 0000000..e0bbdc0 --- /dev/null +++ b/deal.II/packages/hwloc.package @@ -0,0 +1,7 @@ +VERSION=1.9 +NAME=hwloc-${VERSION} +SOURCE=http://www.open-mpi.org/software/hwloc/v${VERSION}/downloads/ +PACKING=.tar.gz +CHECKSUM=1f9f9155682fe8946a97c08896109508 +BUILDCHAIN=autotools + diff --git a/deal.II/packages/p4est.package b/deal.II/packages/p4est.package new file mode 100644 index 0000000..bc1555b --- /dev/null +++ b/deal.II/packages/p4est.package @@ -0,0 +1,89 @@ +NAME=p4est-0.3.4.2 +SOURCE=http://www.p4est.org/tarball/ +PACKING=.tar.gz +CHECKSUM=ef38ea3be84628b1548188106a5b01e7 +BUILDCHAIN=custom + +package_specific_setup () { + function bdie () { + echo "Error: $@" + exit 1 + } + + if test -z "$CFLAGS" -a -z "$P4EST_CFLAGS_FAST" ; then + export CFLAGS_FAST="-O2" + else + export CFLAGS_FAST="$CFLAGS $P4EST_CFLAGS_FAST" + fi + echo "CFLAGS_FAST: $CFLAGS_FAST" + + if test -z "$CFLAGS" -a -z "$P4EST_CFLAGS_DEBUG" ; then + export CFLAGS_DEBUG="-O0 -g" + else + export CFLAGS_DEBUG="$CFLAGS $P4EST_CFLAGS_DEBUG" + fi + echo "CFLAGS_DEBUG: $CFLAGS_DEBUG" + + # choose names for fast and debug build directories + BUILD_FAST="${BUILD_PATH}/${NAME}/FAST" + BUILD_DEBUG="${BUILD_PATH}/${NAME}/DEBUG" + + # choose names for fast and debug installation directories + INSTALL_FAST="${INSTALL_PATH}/${NAME}/FAST" + INSTALL_DEBUG="${INSTALL_PATH}/${NAME}/DEBUG" + + echo + echo "This script tries configure and build the p4est library." + echo "Build FAST: $BUILD_FAST" + echo "Build DEBUG: $BUILD_DEBUG" + echo "Install FAST: $INSTALL_FAST" + echo "Install DEBUG: $INSTALL_DEBUG" + echo "Checking environment: CFLAGS P4EST_CFLAGS_FAST P4EST_CFLAGS_DEBUG" + + test -f "${UNPACK_PATH}/${EXTRACTSTO}/src/p4est.h" || bdie "Main header file missing" + test -f "${UNPACK_PATH}/${EXTRACTSTO}/configure" || bdie "Configure script missing" + + echo "See output in files .../config.output and .../make.output" + echo + + # remove old versions + if test -d "${BUILD_PATH}/${NAME}"; then + rm -rf "${BUILD_PATH}/${NAME}" + fi + + echo "Build FAST version in $BUILD_FAST" + mkdir -p "$BUILD_FAST" + cd "$BUILD_FAST" + "${UNPACK_PATH}/${EXTRACTSTO}/configure" --enable-mpi --enable-shared \ + --disable-vtk-binary --without-blas \ + --prefix="$INSTALL_FAST" CFLAGS="$CFLAGS_FAST" \ + CPPFLAGS="-DSC_LOG_PRIORITY=SC_LP_ESSENTIAL" \ + "$@" > config.output || bdie "Error in configure" + make -C sc -j${PROCS} > make.output || bdie "Error in make sc" + make -j${PROCS} >> make.output || bdie "Error in make p4est" + make install >> make.output || bdie "Error in make install" + echo "FAST version installed in $INSTALL_FAST" + + echo + echo "Build DEBUG version in $BUILD_DEBUG" + mkdir -p "$BUILD_DEBUG" + cd "$BUILD_DEBUG" + "${UNPACK_PATH}/${EXTRACTSTO}/configure" --enable-debug --enable-mpi --enable-shared \ + --disable-vtk-binary --without-blas \ + --prefix="$INSTALL_DEBUG" CFLAGS="$CFLAGS_DEBUG" \ + CPPFLAGS="-DSC_LOG_PRIORITY=SC_LP_ESSENTIAL" \ + "$@" > config.output || bdie "Error in configure" + make -C sc -j${PROCS} > make.output || bdie "Error in make sc" + make -j${PROCS} >> make.output || bdie "Error in make p4est" + make install >> make.output || bdie "Error in make install" + echo "DEBUG version installed in $INSTALL_DEBUG" + echo + + cd "${BUILD_PATH}/${NAME}" + touch dorsal_successful_build +} + + +package_specific_register () { + export P4EST_DIR=${INSTALL_PATH}/${NAME} +} diff --git a/deal.II/packages/petsc.package b/deal.II/packages/petsc.package new file mode 100644 index 0000000..b95cb27 --- /dev/null +++ b/deal.II/packages/petsc.package @@ -0,0 +1,63 @@ +VERSION=3.4.4 +NAME=petsc-${VERSION} +SOURCE=http://ftp.mcs.anl.gov/pub/petsc/release-snapshots/ +PACKING=.tar.gz +CHECKSUM=7edbc68aa6d8d6a3295dd5f6c2f6979d +BUILDCHAIN=custom + +CONFOPTS=" + --with-debugging=0 + --with-shared-libraries=1 + --with-mpi=1 + --with-x=0 +" + +for external_pkg in hypre; do + CONFOPTS="${CONFOPTS} --download-${external_pkg}=1" +done + +if [ "$CC" ]; then + CONFOPTS="${CONFOPTS} CC=$CC" +fi + +if [ "$CXX" ]; then + CONFOPTS="${CONFOPTS} CXX=$CXX" +fi + +if [ "$FC" ]; then + CONFOPTS="${CONFOPTS} FC=$FC" +fi + +if [ "$F77" ]; then + CONFOPTS="${CONFOPTS} F77=$F77" +fi + +if [ "$F90" ]; then + CONFOPTS="${CONFOPTS} F90=$F90" +fi + +if [ "${TRILINOS_DIR}" ]; then + CONFOPTS="${CONFOPTS} --with-ml=1 + --with-ml-lib=${TRILINOS_DIR}/lib/libml.so + --with-ml-include=${TRILINOS_DIR}/include" +fi + +if [ "${CUDA_DIR}" ] && [ "${CUSP_DIR}" ]; then + CONFOPTS="${CONFOPTS} --with-cuda=1 --with-cuda-dir=${CUDA_DIR} + --with-cusp=1 --with-cusp-dir=${CUSP_DIR} + --with-thrust=1 --with-thrust-dir=${CUDA_DIR}/include" +fi + +package_specific_setup () { + cd ${BUILDDIR} + cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . + + ./configure --prefix=${INSTALL_PATH}/${NAME} ${CONFOPTS} + + make all test install +} + +package_specific_register () { + export PETSC_DIR=${INSTALL_PATH}/${NAME} +} + diff --git a/deal.II/packages/slepc.package b/deal.II/packages/slepc.package new file mode 100644 index 0000000..90c31a5 --- /dev/null +++ b/deal.II/packages/slepc.package @@ -0,0 +1,19 @@ +VERSION=3.4.4 +NAME=slepc-${VERSION} +SOURCE=http://www.grycap.upv.es/slepc/download/download.php?filename= +PACKING=.tar.gz +CHECKSUM=329179c5139027c7b293dd5ab0bc112c +BUILDCHAIN=custom + +package_specific_setup () { + cd ${BUILDDIR} + cp -rf ${UNPACK_PATH}/${EXTRACTSTO}/* . + + ./configure --prefix=${INSTALL_PATH}/${NAME} ${CONFOPTS} + make SLEPC_DIR=$PWD PETSC_DIR=${PETSC_DIR} PETSC_ARCH=arch-installed-petsc all test install +} + +package_specific_register () { + export SLEPC_DIR=${INSTALL_PATH}/${NAME} +} + diff --git a/deal.II/packages/trilinos.package b/deal.II/packages/trilinos.package new file mode 100644 index 0000000..4b7e3e2 --- /dev/null +++ b/deal.II/packages/trilinos.package @@ -0,0 +1,27 @@ +VERSION=11.8.1 +NAME=trilinos-${VERSION}-Source +SOURCE=http://trilinos.sandia.gov/download/files/ +PACKING=.tar.gz +CHECKSUM=3c9465b6d63d824e9dc0365ca73c3370 +BUILDCHAIN=cmake + +CONFOPTS="-D Trilinos_ENABLE_OpenMP:BOOL=OFF \ + -D TPL_ENABLE_TBB:BOOL=OFF \ + -D Trilinos_ENABLE_OPTIONAL_PACKAGES:BOOL=ON \ + -D Trilinos_ENABLE_Didasko:BOOL=ON \ + -D Trilinos_ENABLE_Sacado:BOOL=ON \ + -D Trilinos_ENABLE_Stratimikos:BOOL=ON \ + -D CMAKE_BUILD_TYPE:STRING=RELEASE \ + -D CMAKE_CXX_FLAGS:STRING=-fPIC -g -O3 \ + -D CMAKE_C_FLAGS:STRING=-fPIC -g -O3 \ + -D CMAKE_FORTRAN_FLAGS:STRING=-g -O5 \ + -D Trilinos_EXTRA_LINK_FLAGS:STRING=-lgfortran \ + -D CMAKE_VERBOSE_MAKEFILE:BOOL=FALSE \ + -D Trilinos_VERBOSE_CONFIGURE:BOOL=FALSE \ + -D TPL_ENABLE_MPI:BOOL=ON \ + -D BUILD_SHARED_LIBS:BOOL=ON" + +package_specific_register () { + export TRILINOS_DIR=${INSTALL_PATH} +} + diff --git a/deal.II/platforms/.single b/deal.II/platforms/.single new file mode 100644 index 0000000..e69de29 diff --git a/deal.II/platforms/supported/cygwin.platform b/deal.II/platforms/supported/cygwin.platform new file mode 100644 index 0000000..e9e31bb --- /dev/null +++ b/deal.II/platforms/supported/cygwin.platform @@ -0,0 +1,32 @@ +# cygwin +# +# This build script assumes that you have several packages already +# installed: +# +# subversion, git, development-tools (gcc, g++, autoconf, automake, cmake) +# openmpi, blas, lapack (development packages also!) +# Please also make sure, that in your local.cfg only the indended packages +# are switched ON. +# +# Issues: +# - p4est will NOT compile without errors +# - boost 1.55 will NOT compile without errors +# +# Untested: +# - MPI +# - Trilinos, PetSC, Slepc +# +## + +# +# Define the packages this platform needs +PACKAGES=( +#once:boost +#once:hdf5 +#once:p4est +#once:trilinos +#once:petsc +#once:slepc +dealii +) + diff --git a/deal.II/platforms/supported/fedora19.platform b/deal.II/platforms/supported/fedora19.platform new file mode 100644 index 0000000..d6f9609 --- /dev/null +++ b/deal.II/platforms/supported/fedora19.platform @@ -0,0 +1,27 @@ +# Fedora 19 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y svn \ +# @development-tools gcc-c++ cmake \ +# blas blas-devel lapack lapack-devel \ +# doxygen graphviz graphviz-devel qt-devel ' +# +# ARPACK system packages: arpack arpack-devel +# METIS system packages: metis metis-devel +# +## + +# +# Define the packages this platform needs +PACKAGES=( +#once:boost +#once:hdf5 +once:p4est +once:trilinos +once:petsc +once:slepc +dealii +) + diff --git a/deal.II/platforms/supported/fedora20.platform b/deal.II/platforms/supported/fedora20.platform new file mode 100644 index 0000000..89f7ca5 --- /dev/null +++ b/deal.II/platforms/supported/fedora20.platform @@ -0,0 +1,27 @@ +# Fedora 20 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y svn \ +# @development-tools gcc-c++ cmake \ +# blas blas-devel lapack lapack-devel \ +# doxygen graphviz graphviz-devel qt-devel ' +# +# ARPACK system packages: arpack arpack-devel +# METIS system packages: metis metis-devel +# +## + +# +# Define the packages this platform needs +PACKAGES=( +#once:boost +once:hdf5 +once:p4est +once:trilinos +once:petsc +once:slepc +dealii +) + diff --git a/deal.II/platforms/supported/opensuse12.platform b/deal.II/platforms/supported/opensuse12.platform new file mode 100644 index 0000000..5e54364 --- /dev/null +++ b/deal.II/platforms/supported/opensuse12.platform @@ -0,0 +1,33 @@ +# openSUSE 12 +# +# This build script assumes that you have several packages already +# installed via openSUSE's zypper using the following commands: +# +# > su -c 'zypper -n in -t pattern devel_basis devel_C_C++ devel_qt4' +# +# > su -c 'zypper -n in Modules gcc-fortran subversion git cmake \ +# openmpi openmpi-devel splint blas-devel lapack-devel \ +# doxygen graphviz graphviz-devel' +# +# Then reboot and run candi again. +# +# NOTE: There is a small "bug" in openmpi 1.6, you must set the following +# softlink to run mpi-programs: +# > su -c 'mkdir /usr/lib64/mpi/gcc/openmpi/etc' +# +# > su -c 'ln -s /etc/openmpi-default-hostfile \ +# /usr/lib64/mpi/gcc/openmpi/etc/openmpi-default-hostfile' +## + +# +# Define the packages this platform needs +PACKAGES=( +#once:boost +once:hdf5 +once:p4est +once:trilinos +once:petsc +once:slepc +dealii +) + diff --git a/deal.II/platforms/supported/opensuse13.platform b/deal.II/platforms/supported/opensuse13.platform new file mode 100644 index 0000000..a0ce565 --- /dev/null +++ b/deal.II/platforms/supported/opensuse13.platform @@ -0,0 +1,28 @@ +# openSUSE 13 +# +# This build script assumes that you have several packages already +# installed via openSUSE's zypper using the following commands: +# +# > su -c 'zypper -n in -t pattern devel_basis devel_C_C++ devel_qt4' +# +# and +# +# > su -c 'zypper -n in Modules gcc-fortran subversion git cmake \ +# openmpi openmpi-devel splint blas-devel lapack-devel \ +# doxygen graphviz graphviz-devel' +# +# Then reboot and run candi again. +## + +# +# Define the packages this platform needs +PACKAGES=( +#once:boost +once:hdf5 +once:p4est +once:trilinos +once:petsc +once:slepc +dealii +) + diff --git a/deal.II/platforms/supported/rhel6.platform b/deal.II/platforms/supported/rhel6.platform new file mode 100644 index 0000000..29f38ea --- /dev/null +++ b/deal.II/platforms/supported/rhel6.platform @@ -0,0 +1,25 @@ +# RHEL 6 + +# This build script assumes that you have several packages already +# installed via RHEL's yum using the following command: +# +# su -c 'yum install -y svn git wget \ +# @development-tools gcc-c++ cmake \ +# blas blas-devel lapack lapack-devel \ +# doxygen graphviz graphviz-devel qt-devel ' +# +# ARPACK: arpack arpack-devel +# METIS: metis metis-devel +# +## + +# +# Define the packages this platform needs +PACKAGES=( +once:hdf5 +once:p4est +once:trilinos +once:petsc +once:slepc +dealii +) diff --git a/deal.II/platforms/supported/ubuntu13.platform b/deal.II/platforms/supported/ubuntu13.platform new file mode 100644 index 0000000..616b88c --- /dev/null +++ b/deal.II/platforms/supported/ubuntu13.platform @@ -0,0 +1,25 @@ +# ubuntu 13 +# +# This build script assumes that you have several packages already +# installed via ubuntu's apt-get using the following commands: +# +# > su -c 'apt-get install build-essential automake autoconf \ +# gfortran openmpi1.6 cmake subversion git splint splint-dev \ +# blas libblas-dev lapack liblapack-dev libblas3gf liblapack3gf \ +# tcl tcl-dev environment-modules' +# +# Then reboot and run candi again. +## + +# +# Define the packages this platform needs +PACKAGES=( +#once:boost +once:hdf5 +once:p4est +once:trilinos +once:petsc +once:slepc +dealii +) + diff --git a/gcc/packages/gcc.package b/gcc/packages/gcc.package new file mode 100644 index 0000000..279fe2e --- /dev/null +++ b/gcc/packages/gcc.package @@ -0,0 +1,61 @@ +VERSION=${GCC} +NAME=gcc-${VERSION} +SOURCE=ftp://ftp.fu-berlin.de/unix/languages/gcc/releases/${NAME}/ +PACKING=.tar.gz +CHECKSUM=ignore +BUILDCHAIN=autotools + +if [ ${GCC} = "4.7.3" ]; then + CHECKSUM=d518eace24a53aef59c2c69498ea4989 +elif [ ${GCC} = "4.8.2" ]; then + CHECKSUM=deca88241c1135e2ff9fa5486ab5957b +fi + +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/compiler/gcc +CONFIG_FILE=${MODULEFILE_PATH}/${VERSION} + +# ********************************************************************************** +package_specific_conf() { + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + CONFIG_FILE=${MODULEFILE_PATH}/${NAME} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# GNU/GCC ${VERSION} Compiler modulefile +# + +proc ModulesHelp { } { + puts stderr "\tThis module adds GNU ${VERSION} Compiler." +} +conflict compiler + +module-whatis "Sets up the GNU ${VERSION} Compiler environment." + +prepend-path PATH ${INSTALL_PATH}/bin +prepend-path MANPATH ${INSTALL_PATH}/share/man +prepend-path INFOPATH ${INSTALL_PATH}/share/info +prepend-path LD_LIBRARY_PATH ${INSTALL_PATH}/lib64 +prepend-path LD_RUN_PATH ${INSTALL_PATH}/lib64 + +setenv LIBDIR ${INSTALL_PATH}/lib64 +setenv LDFLAGS \"-Wl,-rpath -Wl,${INSTALL_PATH}/lib64\" + +setenv CC ${INSTALL_PATH}/bin/gcc +setenv CXX ${INSTALL_PATH}/bin/g++ +setenv FC ${INSTALL_PATH}/bin/gfortran +setenv FF ${INSTALL_PATH}/bin/gfortran +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo +} + diff --git a/gcc/platforms/.single b/gcc/platforms/.single new file mode 100644 index 0000000..e69de29 diff --git a/gcc/platforms/supported/rhel6.platform b/gcc/platforms/supported/rhel6.platform new file mode 100644 index 0000000..149eb54 --- /dev/null +++ b/gcc/platforms/supported/rhel6.platform @@ -0,0 +1,18 @@ +# RHEL 6 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y \ +# @development-tools gcc-c++ \ +# glibc glibc-devel glibc.i686 glibc-devel.i686 \ +# libmpc libmpc-devel mpfr mpfr-devel gmp gmp-devel \ +# gzip bzip2 ' +# +## + +# Define the packages this platform needs +PACKAGES=( +once:gcc +) + diff --git a/local-DTM++.toolbox.cfg b/local-DTM++.toolbox.cfg new file mode 100644 index 0000000..cf5a8bb --- /dev/null +++ b/local-DTM++.toolbox.cfg @@ -0,0 +1,34 @@ +# Global configuration variables go here. You will want to tweak this +# file to suit your needs. If you want to keep local changes that are +# not overwritten by repository updates, those can be written +# to local.cfg instead (entries there will override those in this file). + +# Meta-project to build +PROJECT=DTM++.toolbox +CLEAN_BUILD=false +COMPILER=native-openmpi + +# How many processes would you like to build using? +PROCS=1 + +# Prefix directory +PREFIX_PATH=~/apps/candi + +# Where do you want the downloaded source files to go? +DOWNLOAD_PATH=${PREFIX_PATH}/src + +# Where do you want to unpack source files to go? +UNPACK_PATH=${PREFIX_PATH}/unpack + +# Where do you want the build files to go? +BUILD_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER}-build + +# Where do you want the compiled software installed? +INSTALL_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER} + +# Would you like to build stable versions of projects? +# If STABLE_BUILD=false, then the development version of deal.II will be +# installed. +STABLE_BUILD=true +#STABLE_BUILD=false + diff --git a/local-FEniCS.cfg b/local-FEniCS.cfg new file mode 100644 index 0000000..42daf31 --- /dev/null +++ b/local-FEniCS.cfg @@ -0,0 +1,31 @@ +# Global configuration variables go here. You will want to tweak this +# file to suit your needs. If you want to keep local changes that are +# not overwritten by repository updates, those can be written +# to local.cfg instead (entries there will override those in this file). + +# Meta-project to build +PROJECT=FEniCS +CLEAN_BUILD=false +COMPILER=native-openmpi + +PREFIX_PATH=~/apps/candi + +# Where do you want the downloaded source files to go? +DOWNLOAD_PATH=${PREFIX_PATH}/src + +# Where do you want to unpack source files to go? +UNPACK_PATH=${PREFIX_PATH}/unpack/${PROJECT} + +# Where do you want the build files to go? +BUILD_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER}-build + +# Where do you want the compiled software installed? +INSTALL_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER} + +# How many processes would you like to build using? +PROCS=1 + +# Would you like to build stable versions of projects? +STABLE_BUILD=true +# Would you like to use snapshots when using STABLE_BUILD=false? +USE_SNAPSHOTS=false diff --git a/local-deal.II.cfg b/local-deal.II.cfg new file mode 100644 index 0000000..7f3a792 --- /dev/null +++ b/local-deal.II.cfg @@ -0,0 +1,74 @@ +# Global configuration variables go here. You will want to tweak this +# file to suit your needs. If you want to keep local changes that are +# not overwritten by repository updates, those can be written +# to local.cfg instead (entries there will override those in this file). + +# Meta-project to build +PROJECT=deal.II +CLEAN_BUILD=false + +######################################################################### +#Choose components of deal.II +DEAL_CONFOPTS=" \ +-D CMAKE_BUILD_TYPE=DebugRelease \ +-D DEAL_II_COMPONENT_DOCUMENTATION:BOOL=OFF \ +-D DEAL_II_WITH_ARPACK:BOOL=OFF \ +-D DEAL_II_WITH_BOOST:BOOL=ON \ +-D DEAL_II_WITH_FUNCTIONPARSER:BOOL=ON \ +-D DEAL_II_WITH_LAPACK:BOOL=ON \ +-D DEAL_II_WITH_METIS:BOOL=OFF \ +-D DEAL_II_WITH_MUMPS:BOOL=OFF \ +-D DEAL_II_WITH_MPI:BOOL=ON \ +-D DEAL_II_WITH_NETCDF:BOOL=OFF \ +-D DEAL_II_WITH_P4EST:BOOL=ON \ +-D DEAL_II_WITH_PETSC:BOOL=ON \ +-D DEAL_II_WITH_SLEPC:BOOL=ON \ +-D DEAL_II_WITH_THREADS:BOOL=OFF \ +-D DEAL_II_WITH_TRILINOS:BOOL=ON \ +-D DEAL_II_WITH_UMFPACK:BOOL=ON \ +-D DEAL_II_WITH_ZLIB:BOOL=ON \ +-D DEAL_II_WITH_HDF5:BOOL=ON \ +" + +# Please add the following path(es) to DEAL_CONFOPTS ahead, +# if you wish to use (self-compiled) versions of them together +# with deal.II. +# Make sure, that the coinciding option is setted to "ON". +# If you want to use the packages from your system, you +# may not set the variables (usually deal.II is smart enough +# to recognise them automatically). +# If you want to install the packages using CANDI, +# simply set the option to ON and do NOT specify the path, +# this will be done automatically elsewhere. +# +#-D ARPACK_DIR= \ +#-D METIS_DIR= \ +#-D MUMPS_DIR= \ +#-D P4EST_DIR= \ +#-D TRILINOS_DIR= \ +#-D HDF5_DIR= \ + +######################################################################### +# Prefix directory +PREFIX_PATH=~/apps/candi +COMPILER=native-openmpi + +# Where do you want the downloaded source files to go? +DOWNLOAD_PATH=${PREFIX_PATH}/src + +# Where do you want to unpack source files to go? +UNPACK_PATH=${PREFIX_PATH}/unpack + +# Where do you want the build files to go? +BUILD_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER}-build + +# Where do you want the compiled software installed? +INSTALL_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER} + +# How many processes would you like to build using? +PROCS=1 + +# Would you like to build stable versions of projects? +# If STABLE_BUILD=false, then the development version of deal.II will be +# installed. +STABLE_BUILD=true diff --git a/local-gcc.cfg b/local-gcc.cfg new file mode 100644 index 0000000..ac39276 --- /dev/null +++ b/local-gcc.cfg @@ -0,0 +1,29 @@ +# Global configuration variables go here. You will want to tweak this +# file to suit your needs. If you want to keep local changes that are +# not overwritten by repository updates, those can be written +# to local.cfg instead (entries there will override those in this file). + +# Meta-project to build +PROJECT=gcc +#VERSION=4.7.3 +VERSION=4.8.2 + +# How many processes would you like to build using? +PROCS=1 + +PREFIX_PATH=~/appl/candi + +# Where do you want the downloaded source files to go? +DOWNLOAD_PATH=${PREFIX_PATH}/src + +# Where do you want to unpack source files to go? +UNPACK_PATH=${PREFIX_PATH}/unpack + +# Where do you want the build files to go? +BUILD_PATH=${PREFIX_PATH}/compiler/${PROJECT}-${VERSION}-build + +# Where do you want the compiled software installed? +INSTALL_PATH=${PREFIX_PATH}/compiler/${PROJECT}/${VERSION} + +GCC=${VERSION} + diff --git a/local-mpi.cfg b/local-mpi.cfg new file mode 100644 index 0000000..4805fe8 --- /dev/null +++ b/local-mpi.cfg @@ -0,0 +1,27 @@ +# Global configuration variables go here. You will want to tweak this +# file to suit your needs. If you want to keep local changes that are +# not overwritten by repository updates, those can be written +# to local.cfg instead (entries there will override those in this file). + +# Meta-project to build +PROJECT=mpi +#COMPILER=llvm +COMPILER=gcc-4.8.2 + +# How many processes would you like to build using? +PROCS=1 + +PREFIX_PATH=~/apps/candi + +# Where do you want the downloaded source files to go? +DOWNLOAD_PATH=${PREFIX_PATH}/src + +# Where do you want the build files to go? +BUILD_PATH=${PREFIX_PATH}/${PROJECT}/${COMPILER}-build + +# Where do you want to unpack source files to go? +UNPACK_PATH=${PREFIX_PATH}/unpack + +# Where do you want the compiled software installed? +INSTALL_PATH=${PREFIX_PATH}/compiler/${PROJECT} + diff --git a/local.cfg b/local.cfg new file mode 120000 index 0000000..a980d14 --- /dev/null +++ b/local.cfg @@ -0,0 +1 @@ +local-DTM++.toolbox.cfg \ No newline at end of file diff --git a/mpi/packages/mpich.package b/mpi/packages/mpich.package new file mode 100644 index 0000000..2c2a1d6 --- /dev/null +++ b/mpi/packages/mpich.package @@ -0,0 +1,68 @@ +VERSION=3.0.4 +NAME=mpich-${VERSION} +SOURCE=http://www.mpich.org/static/downloads/${VERSION}/ +PACKING=.tar.gz +CHECKSUM=9c5d5d4fe1e17dd12153f40bc5b6dbc0 + +BUILDCHAIN=autotools +PROCS=1 +CONFOPTS="-q CFLAGS=-fPIC CXXFLAGS=-fPIC FFLAGS=-fPIC FCFLAGS=-fPIC" +INSTALL_PATH=${INSTALL_PATH}/${COMPILER}/${NAME} + +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/compiler/mpi/${COMPILER} +CONFIG_FILE=${MODULEFILE_PATH}/${NAME} + +# ********************************************************************************** +package_specific_conf() { + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# ${NAME} against ${COMPILER} +# + +conflict compiler + +prepend-path PATH ${PATH} +prepend-path MANPATH ${MANPATH} +prepend-path INFOPATH ${INFOPATH} +prepend-path LD_LIBRARY_PATH ${LD_LIBRARY_PATH} +prepend-path LD_RUN_PATH ${LD_RUN_PATH} + +setenv LIBDIR ${LIBDIR} +setenv LDFLAGS \"${LDFLAGS}\" + +prepend-path PATH ${INSTALL_PATH}/bin +prepend-path LD_LIBRARY_PATH ${INSTALL_PATH}/lib +prepend-path MANPATH ${INSTALL_PATH}/share/man + +setenv MPI_BIN ${INSTALL_PATH}/bin +setenv MPI_SYSCONFIG ${INSTALL_PATH}/etc +setenv MPI_INCLUDE ${INSTALL_PATH}/include +setenv MPI_LIB ${INSTALL_PATH}/lib +setenv MPI_MAN ${INSTALL_PATH}/share/man +setenv MPI_COMPILER mpich-x86_64 +setenv MPI_SUFFIX _mpich +setenv MPI_HOME ${INSTALL_PATH} + +setenv CC ${INSTALL_PATH}/bin/mpicc +setenv CXX ${INSTALL_PATH}/bin/mpic++ +setenv FC ${INSTALL_PATH}/bin/mpif90 +setenv FF ${INSTALL_PATH}/bin/mpif77 +setenv F90 ${INSTALL_PATH}/mpif90 +setenv F77 ${INSTALL_PATH}/bin/mpif77 +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo +} + diff --git a/mpi/packages/mpich2.package b/mpi/packages/mpich2.package new file mode 100644 index 0000000..502cc05 --- /dev/null +++ b/mpi/packages/mpich2.package @@ -0,0 +1,68 @@ +VERSION=1.4.1p1 +NAME=mpich2-${VERSION} +SOURCE=http://www.mpich.org/static/downloads/${VERSION}/ +PACKING=.tar.gz +CHECKSUM=b470666749bcb4a0449a072a18e2c204 + +BUILDCHAIN=autotools +PROCS=1 +CONFOPTS="-q CFLAGS=-fPIC CXXFLAGS=-fPIC FFLAGS=-fPIC FCFLAGS=-fPIC" +INSTALL_PATH=${INSTALL_PATH}/${COMPILER}/${NAME} + +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/compiler/mpi/${COMPILER} +CONFIG_FILE=${MODULEFILE_PATH}/${NAME} + +# ********************************************************************************** +package_specific_conf() { + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# ${NAME} against ${COMPILER} +# + +conflict compiler + +prepend-path PATH ${PATH} +prepend-path MANPATH ${MANPATH} +prepend-path INFOPATH ${INFOPATH} +prepend-path LD_LIBRARY_PATH ${LD_LIBRARY_PATH} +prepend-path LD_RUN_PATH ${LD_RUN_PATH} + +setenv LIBDIR ${LIBDIR} +setenv LDFLAGS \"${LDFLAGS}\" + +prepend-path PATH ${INSTALL_PATH}/bin +prepend-path LD_LIBRARY_PATH ${INSTALL_PATH}/lib +prepend-path MANPATH ${INSTALL_PATH}/share/man + +setenv MPI_BIN ${INSTALL_PATH}/bin +setenv MPI_SYSCONFIG ${INSTALL_PATH}/etc +setenv MPI_INCLUDE ${INSTALL_PATH}/include +setenv MPI_LIB ${INSTALL_PATH}/lib +setenv MPI_MAN ${INSTALL_PATH}/share/man +setenv MPI_COMPILER mpich-x86_64 +setenv MPI_SUFFIX _mpich +setenv MPI_HOME ${INSTALL_PATH} + +setenv CC ${INSTALL_PATH}/bin/mpicc +setenv CXX ${INSTALL_PATH}/bin/mpic++ +setenv FC ${INSTALL_PATH}/bin/mpif90 +setenv FF ${INSTALL_PATH}/bin/mpif77 +setenv F90 ${INSTALL_PATH}/mpif90 +setenv F77 ${INSTALL_PATH}/bin/mpif77 +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo +} + diff --git a/mpi/packages/openmpi.package b/mpi/packages/openmpi.package new file mode 100644 index 0000000..843c377 --- /dev/null +++ b/mpi/packages/openmpi.package @@ -0,0 +1,67 @@ +VERSION=1.6.5 +NAME=openmpi-${VERSION} +SOURCE=http://www.open-mpi.org/software/ompi/v1.6/downloads/ +PACKING=.tar.bz2 +CHECKSUM=03aed2a4aa4d0b27196962a2a65fc475 + +BUILDCHAIN=autotools +PROCS=1 +#CONFOPTS="--disable-dlopen" +TARGETS=('' all install) + +MODULEFILE_PATH=${INSTALL_PATH}/conf/modulefiles/compiler/mpi/${COMPILER} +CONFIG_FILE=${MODULEFILE_PATH}/${NAME} + +# ********************************************************************************** +package_specific_conf() { + # Generate modulefile + + mkdir -p ${MODULEFILE_PATH} + CONFIG_FILE=${MODULEFILE_PATH}/${NAME} + rm -f $CONFIG_FILE + echo "#%Module 1.0 +# +# ${NAME} against ${COMPILER} +# + +prepend-path PATH ${PATH} +prepend-path MANPATH ${MANPATH} +prepend-path INFOPATH ${INFOPATH} +prepend-path LD_LIBRARY_PATH ${LD_LIBRARY_PATH} +prepend-path LD_RUN_PATH ${LD_RUN_PATH} + +setenv LIBDIR ${LIBDIR} +setenv LDFLAGS \"${LDFLAGS}\" + +prepend-path PATH ${INSTALL_PATH}/${COMPILER}/${NAME}/bin +prepend-path LD_LIBRARY_PATH ${INSTALL_PATH}/${COMPILER}/${NAME}/lib +prepend-path MANPATH ${INSTALL_PATH}/${COMPILER}/${NAME}/share/man + +setenv MPI_BIN ${INSTALL_PATH}/${COMPILER}/${NAME}/bin +setenv MPI_SYSCONFIG ${INSTALL_PATH}/${COMPILER}/${NAME}/etc +setenv MPI_INCLUDE ${INSTALL_PATH}/${COMPILER}/${NAME}/include +setenv MPI_LIB ${INSTALL_PATH}/${COMPILER}/${NAME}/lib +setenv MPI_MAN ${INSTALL_PATH}/${COMPILER}/${NAME}/share/man +setenv MPI_COMPILER openmpi-x86_64 +setenv MPI_SUFFIX _openmpi +setenv MPI_HOME ${INSTALL_PATH}/${COMPILER}/${NAME} + +setenv CC ${INSTALL_PATH}/${COMPILER}/${NAME}/bin/mpicc +setenv CXX ${INSTALL_PATH}/${COMPILER}/${NAME}/bin/mpic++ +setenv FC ${INSTALL_PATH}/${COMPILER}/${NAME}/bin/mpif90 +setenv FF ${INSTALL_PATH}/${COMPILER}/${NAME}/bin/mpif77 +setenv F90 ${INSTALL_PATH}/${COMPILER}/${NAME}/mpif90 +setenv F77 ${INSTALL_PATH}/${COMPILER}/${NAME}/bin/mpif77 +" >> $CONFIG_FILE + + echo + echo "${NAME} has now been installed in" + echo + cecho ${GOOD} " ${INSTALL_PATH}/${COMPILER}/${NAME}" + echo + echo "To update your environment variables, use the created modulefile:" + echo + cecho ${GOOD} " $CONFIG_FILE" + echo +} + diff --git a/mpi/platforms/.single b/mpi/platforms/.single new file mode 100644 index 0000000..e69de29 diff --git a/mpi/platforms/deprecated/fedora19.platform b/mpi/platforms/deprecated/fedora19.platform new file mode 100644 index 0000000..40d2c52 --- /dev/null +++ b/mpi/platforms/deprecated/fedora19.platform @@ -0,0 +1,16 @@ +# Fedora 19 + +# This build script assumes that you have several packages already +# installed via Fedora's yum using the following command: +# +# su -c 'yum install -y svn \ +# @development-tools gcc-c++ cmake \ +# blas blas-devel lapack lapack-devel \ +# doxygen graphviz graphviz-devel qt-devel' +# +## + +# Define the packages this platform needs +PACKAGES=( +dealii +) diff --git a/mpi/platforms/supported/fedora19.platform b/mpi/platforms/supported/fedora19.platform new file mode 100644 index 0000000..8b72349 --- /dev/null +++ b/mpi/platforms/supported/fedora19.platform @@ -0,0 +1,13 @@ +# Fedora 20 + +# This build script assumes that you have installed +# an appropriate C/C++ and Fortran compiler. +# +## + +# Define the packages this platform needs +PACKAGES=( +#mpich2 +#mpich +openmpi +) diff --git a/mpi/platforms/supported/fedora20.platform b/mpi/platforms/supported/fedora20.platform new file mode 100644 index 0000000..b3e3fdb --- /dev/null +++ b/mpi/platforms/supported/fedora20.platform @@ -0,0 +1,13 @@ +# Fedora 20 + +# This build script assumes that you have installed +# an appropriate C/C++ and Fortran compiler. +# +## + +# Define the packages this platform needs +PACKAGES=( +once:mpich2 +once:mpich +once:openmpi +) diff --git a/mpi/platforms/supported/rhel6.platform b/mpi/platforms/supported/rhel6.platform new file mode 100644 index 0000000..06f8aeb --- /dev/null +++ b/mpi/platforms/supported/rhel6.platform @@ -0,0 +1,14 @@ +# RHEL 6 + +# This build script assumes that you have installed +# an appropriate C/C++ and Fortran compiler. +# +# su -c 'yum install -y libtool-ltdl libtool-ltdl-devel' +## + +# Define the packages this platform needs +PACKAGES=( +once:mpich2 +#once:mpich +#once:openmpi +) diff --git a/utilities/clean.sh b/utilities/clean.sh new file mode 100755 index 0000000..5414277 --- /dev/null +++ b/utilities/clean.sh @@ -0,0 +1,6 @@ +#!/usr/bin/env bash + +# This is a utility script to clean temporary files originating from +# Emacs and elsewhere + +rm `find .. -name '*~' | xargs` \ No newline at end of file diff --git a/utilities/generate-author-list.sh b/utilities/generate-author-list.sh new file mode 100755 index 0000000..94de744 --- /dev/null +++ b/utilities/generate-author-list.sh @@ -0,0 +1,10 @@ +bzr log -n0 | grep 'committer:' | sed -e 's/^.*committer: //g' \ +| sed -e 's/<.*>//g' | sed 's/[ \t]*$//' \ +| sed -e 's/garth.*/Garth N. Wells/g' \ +| sed -e 's/gnw20.*/Garth N. Wells/g' \ +| sed -e 's/harish.*/Harish Narayanan/g' \ +| sed -e 's/hnarayan.*/Harish Narayanan/g' \ +| sed -e 's/ilmar.*/Ilmar Wilbers/g' \ +| sed -e 's/Joachim B Haga/Joachim B. Haga/g' \ +| sed -e 's/logg.*/Anders Logg/g' \ +| sort | uniq -c | sort -k 2,2n -r | gawk '{print $2" "$3" "$4}' \ No newline at end of file diff --git a/utilities/install-fenics.sh b/utilities/install-fenics.sh new file mode 100755 index 0000000..a34c704 --- /dev/null +++ b/utilities/install-fenics.sh @@ -0,0 +1,141 @@ +#!/usr/bin/env bash + +# Set default values of some useful variables +export VERSION="1.0-beta" # Latest released Dorsal version +export PREFIX=${HOME}/local # Default download/install location +export ORIG_DIR=`pwd` # Store original directory, so we can + # return to it when finished + +# Colours for progress and error reporting +BAD="\033[1;31m" +GOOD="\033[1;32m" +BOLD="\033[1m" + +### Define helper functions ### + +cecho() { + # Display messages in a specified colour + COL=$1; shift + echo -e "${COL}$@\033[0m" +} + +default () { + # Export a variable, if it is not already set + VAR="${1%%=*}" + VALUE="${1#*=}" + eval "[[ \$$VAR ]] || export $VAR='$VALUE'" +} + +# Make a directory name more readable by replacing homedir with ~ +prettify_dir() { + echo ${1/#$HOME\//~\/} +} + +# Make a directory name entered with ~ for the homedir more portable +unprettify_dir() { + echo ${1/#~\//$HOME\/} +} + +# Fetch the latest released version of Dorsal +fetch_dorsal() { + default TMPDIR=/tmp + cd ${TMPDIR} + cecho ${GOOD} "Fetching the FEniCS installer files" + wget -N http://launchpad.net/dorsal/trunk/${VERSION}/+download/dorsal-${VERSION}.tar.bz2 + if [ -d "dorsal-${VERSION}" ] + then + rm -fr dorsal-${VERSION} + fi + tar -xjf dorsal-${VERSION}.tar.bz2 + cd dorsal-${VERSION} +} + +# Set up the build configuration (using some sensible defaults) +cfg_dorsal() { + echo "PROJECT=FEniCS" > dorsal.cfg + echo "DOWNLOAD_PATH=${PREFIX}/src" >> dorsal.cfg + echo "INSTALL_PATH=${PREFIX}" >> dorsal.cfg + echo "PROCS=2" >> dorsal.cfg + echo "STABLE_BUILD=true" >> dorsal.cfg +} + +# Run the build script +run_dorsal() { + ./dorsal.sh + cd ${ORIG_DIR} +} + + +while : +do + + SELECTION1="Install FEniCS" + SELECTION2="Change installation path [$(prettify_dir ${PREFIX})]" + SELECTION3="Exit installer" + + if [ -x /usr/bin/zenity ]; then + + SELECTION=`/usr/bin/zenity \ + --width 350 --height 225 \ + --title "FEniCS Installer" \ + --text "Welcome to the FEniCS Installer" \ + --list --radiolist \ + --column Select \ + --column Action \ + True "${SELECTION1}" \ + False "${SELECTION2}" \ + False "${SELECTION3}"` + + case ${SELECTION} in + "${SELECTION1}") + fetch_dorsal + cfg_dorsal + run_dorsal + ;; + "${SELECTION2}") + PREFIX=`zenity --title 'Select installation path' --file-selection --directory` + ;; + "${SELECTION3}") + cd ${ORIG_DIR} + exit 0 + ;; + *) + echo "default" + ;; + esac + + else + + clear + echo "-------------------------------------------------------------------------------" + echo " Welcome to the FEniCS installer" + echo "-------------------------------------------------------------------------------" + echo "" + echo " [1] ${SELECTION1}" + echo " [2] ${SELECTION2}" + echo " [3] ${SELECTION3}" + echo "" + echo "-------------------------------------------------------------------------------" + echo "" + echo -n "What would you like to do? [1-3]: " + read OPTION + + case ${OPTION} in + 1) fetch_dorsal + cfg_dorsal + run_dorsal + ;; + 2) echo "Please enter your preferred installation path: "; + read PREFIX + PREFIX=$(unprettify_dir ${PREFIX}) + ;; + 3) cd ${ORIG_DIR} + exit 0 + ;; + *) ;; + esac + echo "" + + fi + +done diff --git a/utilities/test-package-usage.sh b/utilities/test-package-usage.sh new file mode 100755 index 0000000..c2b1d21 --- /dev/null +++ b/utilities/test-package-usage.sh @@ -0,0 +1,26 @@ +#!/usr/bin/env bash + +# This is a utility script to check whether the numerous defined +# packages in Dorsal are used or not. It is used sporadically to cull +# unused packages. + +# Colours for progress and error reporting +BAD="\033[1;31m" +GOOD="\033[1;32m" + +cecho() { + # Display messages in a specified colour + COL=$1; shift + echo -e "${COL}$@\033[0m" +} + +for packagefull in ../FEniCS/packages/*.package +do + package=`basename ${packagefull} .package` + if [[ "${package}" != *stable ]] + then + grep -q ${package} ../FEniCS/platforms/*/*.platform \ + && cecho ${GOOD} ${package} "package is used." \ + || cecho ${BAD} ${package} "package is not used." + fi +done \ No newline at end of file